Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002879.1 Hibiscus syriacus cultivar Beakdansim tig00005936_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 492147
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 1 of 3
Found at i:2642 original size:22 final size:22
Alignment explanation
Indices: 2599--2646 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 22
2589 TTTTGTGCTG
2599 AAAACAAGATAAAAAAAAAGATT
1 AAAACAAGATAAAAAAAAAGA-T
*
2622 AAAACAAGAT-AAATAAAAGAT
1 AAAACAAGATAAAAAAAAAGAT
2643 AAAA
1 AAAA
2647 GAATCGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 5 0.21
22 9 0.38
23 10 0.42
ACGTcount: A:0.75, C:0.04, G:0.08, T:0.12
Consensus pattern (22 bp):
AAAACAAGATAAAAAAAAAGAT
Found at i:3109 original size:43 final size:46
Alignment explanation
Indices: 3039--3138 Score: 118
Period size: 48 Copynumber: 2.2 Consensus size: 46
3029 ACTAGAGAAT
* * *
3039 AAATAATAATAAACTAAACATGTTTTAA-C-TC-TAATTCCTAATA
1 AAATAATAATAAACTAAAAATATTTTAACCACCTTAATTCCTAATA
3082 AAATAATAAT-AACTAAAAATATGTTTAACCCAACCTTAATTCCTAATA
1 AAATAATAATAAACTAAAAATAT-TTTAA-CC-ACCTTAATTCCTAATA
3130 AAATAATAA
1 AAATAATAA
3139 ATCTGATCCT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
42 10 0.21
43 15 0.31
45 1 0.02
47 1 0.02
48 21 0.44
ACGTcount: A:0.52, C:0.14, G:0.02, T:0.32
Consensus pattern (46 bp):
AAATAATAATAAACTAAAAATATTTTAACCACCTTAATTCCTAATA
Found at i:9275 original size:24 final size:22
Alignment explanation
Indices: 9243--9292 Score: 73
Period size: 24 Copynumber: 2.2 Consensus size: 22
9233 TTTTGTGCTG
9243 AAAACAAGATAAAAAAATAAGATT
1 AAAACAAGATAAAAAAA-AAGA-T
*
9267 AAAACAAGATAAATAAAAAGAT
1 AAAACAAGATAAAAAAAAAGAT
9289 AAAA
1 AAAA
9293 GAATCGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 5 0.20
23 4 0.16
24 16 0.64
ACGTcount: A:0.74, C:0.04, G:0.08, T:0.14
Consensus pattern (22 bp):
AAAACAAGATAAAAAAAAAGAT
Found at i:12724 original size:21 final size:21
Alignment explanation
Indices: 12666--12752 Score: 104
Period size: 21 Copynumber: 4.1 Consensus size: 21
12656 AAACCTAAAT
*
12666 AAATCCTAAACTCTAAATCTC
1 AAATCCTAACCTCTAAATCTC
* *
12687 AAATCATAACCCCTAAATCTC
1 AAATCCTAACCTCTAAATCTC
*
12708 AAATCCTAACCTTTAAAT-TCC
1 AAATCCTAACCTCTAAATCT-C
* *
12729 AAACCCTAACCTCTAAATCAC
1 AAATCCTAACCTCTAAATCTC
12750 AAA
1 AAA
12753 ACTTAAAACC
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
20 1 0.02
21 54 0.98
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (21 bp):
AAATCCTAACCTCTAAATCTC
Found at i:12766 original size:22 final size:24
Alignment explanation
Indices: 12736--12791 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 24
12726 TCCAAACCCT
12736 AACCTCTAAATCA-CAAAACT-TAA
1 AACC-CTAAATCACCAAAACTATAA
*
12759 AACCCTAAA-CACCAAATCTATAA
1 AACCCTAAATCACCAAAACTATAA
12782 AACCCTAAAT
1 AACCCTAAAT
12792 TATAATCCCT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 2 0.07
22 11 0.38
23 16 0.55
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.20
Consensus pattern (24 bp):
AACCCTAAATCACCAAAACTATAA
Found at i:14140 original size:24 final size:23
Alignment explanation
Indices: 14108--14180 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 23
14098 TATATCAATG
14108 ATAAAAATAAATTAAATAAACAAA
1 ATAAAAATAAA-TAAATAAACAAA
14132 ATAAAAATAGAATAAATAAA-AAA
1 ATAAAAATA-AATAAATAAACAAA
*
14155 ATAATAAGATAAAAAAATAAAACAAA
1 ATAA-AA-ATAAATAAAT-AAACAAA
14181 GAAGACTATT
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
23 7 0.16
24 25 0.58
25 8 0.19
26 3 0.07
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.18
Consensus pattern (23 bp):
ATAAAAATAAATAAATAAACAAA
Found at i:14145 original size:20 final size:18
Alignment explanation
Indices: 14110--14176 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 18
14100 TATCAATGAT
*
14110 AAAAAT-AAATTAAATAA
1 AAAAATAAAAATAAATAA
14127 ACAAAATAAAAATAGAATAA
1 A-AAAATAAAAATA-AATAA
14147 ATAAAA-AAATAATAAGATAA
1 A-AAAATAAA-AATAA-ATAA
14167 AAAAATAAAA
1 AAAAATAAAA
14177 CAAAGAAGAC
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
17 1 0.02
18 5 0.12
19 14 0.33
20 22 0.52
ACGTcount: A:0.78, C:0.01, G:0.03, T:0.18
Consensus pattern (18 bp):
AAAAATAAAAATAAATAA
Found at i:14166 original size:16 final size:15
Alignment explanation
Indices: 14130--14174 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
14120 TAAATAAACA
* *
14130 AAATAAAAATAGAAT
1 AAATAAAAAAATAAT
14145 AAATAAAAAAATAAT
1 AAATAAAAAAATAAT
14160 AAGATAAAAAAATAA
1 AA-ATAAAAAAATAA
14175 AACAAAGAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 15 0.56
16 12 0.44
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (15 bp):
AAATAAAAAAATAAT
Found at i:14693 original size:31 final size:31
Alignment explanation
Indices: 14655--14717 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 31
14645 TAAATGTTGG
14655 AAATTAAAAGG-ACTG-AAATAAAAATGCAGGA
1 AAATTAAAAGGCA-TGAAAAT-AAAATGCAGGA
14686 AAATTAAAAGGCATGAAAATAAAATGCAGGA
1 AAATTAAAAGGCATGAAAATAAAATGCAGGA
14717 A
1 A
14718 TTTAAAGTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
31 25 0.83
32 5 0.17
ACGTcount: A:0.59, C:0.06, G:0.19, T:0.16
Consensus pattern (31 bp):
AAATTAAAAGGCATGAAAATAAAATGCAGGA
Found at i:14694 original size:16 final size:16
Alignment explanation
Indices: 14670--14739 Score: 63
Period size: 16 Copynumber: 4.5 Consensus size: 16
14660 AAAAGGACTG
*
14670 AAATAAAAATGCAGGA
1 AAATTAAAATGCAGGA
* *
14686 AAATTAAAAGGCATGA
1 AAATTAAAATGCAGGA
14702 AAA-TAAAATGCAGG-
1 AAATTAAAATGCAGGA
* * *
14716 AATTTAAAGTGCTGGA
1 AAATTAAAATGCAGGA
*
14732 AAAATAAA
1 AAATTAAA
14740 TAAAAAAAGC
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
14 2 0.05
15 18 0.43
16 22 0.52
ACGTcount: A:0.57, C:0.06, G:0.19, T:0.19
Consensus pattern (16 bp):
AAATTAAAATGCAGGA
Found at i:14723 original size:15 final size:15
Alignment explanation
Indices: 14669--14733 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 15
14659 TAAAAGGACT
*
14669 GAAATAAAAATGCAG
1 GAAATTAAAATGCAG
* *
14684 GAAAATTAAAAGGCAT
1 G-AAATTAAAATGCAG
*
14700 GAAAATAAAATGCAG
1 GAAATTAAAATGCAG
* * *
14715 GAATTTAAAGTGCTG
1 GAAATTAAAATGCAG
14730 GAAA
1 GAAA
14734 AATAAATAAA
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
15 26 0.68
16 12 0.32
ACGTcount: A:0.54, C:0.06, G:0.22, T:0.18
Consensus pattern (15 bp):
GAAATTAAAATGCAG
Found at i:15049 original size:202 final size:201
Alignment explanation
Indices: 14780--15164 Score: 542
Period size: 202 Copynumber: 1.9 Consensus size: 201
14770 GCATAAATTT
* * *
14780 AAAAGTTAGGGGTTGTTTTTAACCGTTTAACCCGGACCATAAATAATGCAGATCGTCTCACAGGG
1 AAAAGTTAGGGGTTGTTTTTAACCGTTTAACCCGGACCATAAATAATACAGATAGACTCACAGGG
* *
14845 CGGGTCACCACAAGGTTGTTGAATATTCGAATGTTAAAAAATTAGCAGGTTAGTTTGTGCAATAA
66 CGGGTCACCACAAGGTCGTTGAATATTCAAATGTTAAAAAATTAGCAGGTTAGTTTGTGCAATAA
* *
14910 AAT-AAATGTTAGTACGTTAGTAAGAATAATAAAATAAAAAAGTTA-TAATGTTAATATTAACAA
131 AATAAAATGTTAGTAAGTTAGTAAGAACAATAAAA-AAAAAAGTTAGT-ATGTTAATATTAACAA
14973 ATAAAATA
194 ATAAAATA
* * * * *
14981 AAAAGTTAGGGGGTTGTTTTTATCTGTTTAACCCGGACCATAAATAATACGGGTAGAC-CCCTAG
1 AAAAGTTA-GGGGTTGTTTTTAACCGTTTAACCCGGACCATAAATAATACAGATAGACTCAC-AG
*** * * *
15045 GGCGGGTCACTGTAAGGTCGTTGAATATTCAAATGTTAGAAAATTATCGGGTTAGTTTGTGCAAT
64 GGCGGGTCACCACAAGGTCGTTGAATATTCAAATGTTAAAAAATTAGCAGGTTAGTTTGTGCAAT
*
15110 AAAATAAAATGTTAGTAAGTTAGTAAGAACAATAAAAATAAAAGTTAGTATGTTA
129 AAAATAAAATGTTAGTAAGTTAGTAAGAACAATAAAAAAAAAAGTTAGTATGTTA
15165 GTAAGTTAGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
201 10 0.06
202 121 0.75
203 30 0.19
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (201 bp):
AAAAGTTAGGGGTTGTTTTTAACCGTTTAACCCGGACCATAAATAATACAGATAGACTCACAGGG
CGGGTCACCACAAGGTCGTTGAATATTCAAATGTTAAAAAATTAGCAGGTTAGTTTGTGCAATAA
AATAAAATGTTAGTAAGTTAGTAAGAACAATAAAAAAAAAAGTTAGTATGTTAATATTAACAAAT
AAAATA
Found at i:15132 original size:33 final size:33
Alignment explanation
Indices: 15106--15169 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 33
15096 TTAGTTTGTG
15106 CAAT-AAAATAAAATGTTAGTAAGTTAGTAAGAA
1 CAATAAAAATAAAA-GTTAGTAAGTTAGTAAGAA
*
15139 CAATAAAAATAAAAGTTAGTATGTTAGTAAG
1 CAATAAAAATAAAAGTTAGTAAGTTAGTAAG
15170 TTAGAAAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 20 0.69
34 9 0.31
ACGTcount: A:0.53, C:0.03, G:0.16, T:0.28
Consensus pattern (33 bp):
CAATAAAAATAAAAGTTAGTAAGTTAGTAAGAA
Found at i:16910 original size:220 final size:220
Alignment explanation
Indices: 16508--16970 Score: 665
Period size: 220 Copynumber: 2.1 Consensus size: 220
16498 AATATGACAT
* * * * * * *
16508 TGCTCATTCTCGTTAAGGAAATCGGGTCAATCTGGAAATAATTAGATGTTGAAGACGACACTGCT
1 TGCTCCTTCGCGTTGAGGAGATCGGGTCAATCTAGAAATAATTAGATGTTGAAGAAGAAACTGCT
* *
16573 CATCCATGTTGAAGAGACCGGGTGGCTTTCAGGTAAATTGTTTGCTGAAGATAACGTTGTTTCCT
66 CATCCATGTTGAAGAGACCGGGTCGCTTTCAGGTAAATTATTTGCTGAAGATAACGTTGTTTCCT
** * *
16638 CTCGTTGAGGAAATCGGGTCAATCTGAAGATAATTTGTAGACAACACGGTTCCTTCGCGTTAAGG
131 CTCGTTGAGGAAATAAGGTCAATATGAAGATAATTTGGAGACAACACGGTTCCTTCGCGTTAAGG
*
16703 AAGTCTGATTATCTGAGAATGACAC
196 AAGTCTGATTATCTGAGAATGAAAC
* * *
16728 TGCTCCTTCGCTTTGAGGAGATCGGGTCAATCTAGAAATAATTTGGTGTTGAAGAAGAAACTGCT
1 TGCTCCTTCGCGTTGAGGAGATCGGGTCAATCTAGAAATAATTAGATGTTGAAGAAGAAACTGCT
* * ** * *
16793 CATCCATGTTGAAGAGATCTGGTCTTTTTCAGGTAAATTATTTGCTGAAGATGACGTTGTTTCTT
66 CATCCATGTTGAAGAGACCGGGTCGCTTTCAGGTAAATTATTTGCTGAAGATAACGTTGTTTCCT
* * *
16858 CTCGTTGAGGAAATAAGGTTAATATGGAGATAATTTGGAGACAACACGGTTCCTTCGCGTTGAGG
131 CTCGTTGAGGAAATAAGGTCAATATGAAGATAATTTGGAGACAACACGGTTCCTTCGCGTTAAGG
* * *
16923 AAGTCTGGTTGTCTGAGGATGAAAC
196 AAGTCTGATTATCTGAGAATGAAAC
16948 TGCTCCTTCGCGTTGAGGAGATC
1 TGCTCCTTCGCGTTGAGGAGATC
16971 TGGTTAGTGA
Statistics
Matches: 213, Mismatches: 30, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
220 213 1.00
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (220 bp):
TGCTCCTTCGCGTTGAGGAGATCGGGTCAATCTAGAAATAATTAGATGTTGAAGAAGAAACTGCT
CATCCATGTTGAAGAGACCGGGTCGCTTTCAGGTAAATTATTTGCTGAAGATAACGTTGTTTCCT
CTCGTTGAGGAAATAAGGTCAATATGAAGATAATTTGGAGACAACACGGTTCCTTCGCGTTAAGG
AAGTCTGATTATCTGAGAATGAAAC
Found at i:17152 original size:139 final size:137
Alignment explanation
Indices: 16886--17385 Score: 547
Period size: 139 Copynumber: 3.6 Consensus size: 137
16876 TTAATATGGA
* * * * * *
16886 GATAATTTGGAGACAACACGGTTCCTTCGCGTTGAGGAAGTCTGGTTGTCTGAGGATGAAACTGC
1 GATAATTTGGAGACAACACGGTTCCTACGTGATGAGGAAGTCTGATTGCCTGAGGATGACACTGC
* * * *
16951 TCCTTCGCGTTGAGGAGATCTGGTTAGTGAATGACATTGTTCATTCGTGATTAGGACA-TCTAGC
66 TCCTACGCGTTGAGGAGATCTGGTCAGTG-ATGACATTGTTCCTTCATG-TTAGGA-AGTCTAGC
*
17015 CTTCTGTAGG
128 CTTCTTTAGG
* * *
17025 GATAATTTGGAGACAACATGGTTCCTACGTGATGAGGAAGTCTAATTGCCTGAGGATGACATTGC
1 GATAATTTGGAGACAACACGGTTCCTACGTGATGAGGAAGTCTGATTGCCTGAGGATGACACTGC
* * *
17090 TCCTGCGCATTGAGGAGATCTGGTCATTAGATGACATTGTTCCTTCATGTTAAGGAAGTCTAGCC
66 TCCTACGCGTTGAGGAGATCTGGTCAGT-GATGACATTGTTCCTTCATGTT-AGGAAGTCTAGCC
17155 ATT-TTTAGG
129 -TTCTTTAGG
* * * * * * *
17164 GATAATTTTGAGACAACAAGGTTCCTAAGTGATGATGAAGTGTGATTGCTTGAGGATGACGCTGC
1 GATAATTTGGAGACAACACGGTTCCTACGTGATGAGGAAGTCTGATTGCCTGAGGATGACACTGC
* ** * * * ** *
17229 TCCTACGCGTTGAGGAGATCTGGTCGGTGGACAACATTGTTTCTACTTGACGAGGACGTCTAGCC
66 TCCTACGCGTTGAGGAGATCTGGTCAGT-GATGACATTGTTCCTTCATG-TTAGGAAGTCTAGCC
*
17294 GTCTTTAGG
129 TTCTTTAGG
* * * *
17303 GATAATTTGGAGACAACACAGTTCCTACGTGATGAGGAAGTTTGATTGCCTG-TGATTGACGCTG
1 GATAATTTGGAGACAACACGGTTCCTACGTGATGAGGAAGTCTGATTGCCTGAGGA-TGACACTG
*
17367 CTCCTACGCTTTGAGGAGA
65 CTCCTACGCGTTGAGGAGA
17386 GCTACTATAG
Statistics
Matches: 306, Mismatches: 48, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
138 6 0.02
139 297 0.97
140 3 0.01
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (137 bp):
GATAATTTGGAGACAACACGGTTCCTACGTGATGAGGAAGTCTGATTGCCTGAGGATGACACTGC
TCCTACGCGTTGAGGAGATCTGGTCAGTGATGACATTGTTCCTTCATGTTAGGAAGTCTAGCCTT
CTTTAGG
Found at i:17735 original size:102 final size:101
Alignment explanation
Indices: 17591--17783 Score: 273
Period size: 102 Copynumber: 1.9 Consensus size: 101
17581 TGCGTTTCAA
* *
17591 GGGAAAATTGTCTCAAACGAGAAAAATTGTTTTTAAGAAAAACAATCTCAAATGTTATCAATTTT
1 GGGAAAATTGTCTCAAACGAGAAAAATTGTTTTTAAGAAAAACAATCTCAAACGATATCAATTTT
*
17656 GTTTCAAGTGAAACAATTTCCAATTTTTTCGTTTTGT
66 GTTTCAAGTGAAACAA-TTCAAATTTTTTCGTTTTGT
* * * * *
17693 GGGAAAATTGTCTCAAACGAGACGAAATTAG-TTTT-AGGAAAACTATCTTAAGCGATATCAATT
1 GGGAAAATTGTCTCAAACGAGA-AAAATT-GTTTTTAAGAAAAACAATCTCAAACGATATCAATT
17756 TTGTTTCAAGTGAAACAATTCAAATTTT
64 TTGTTTCAAGTGAAACAATTCAAATTTT
17784 GGGGAAAATT
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
101 9 0.11
102 62 0.77
103 9 0.11
104 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (101 bp):
GGGAAAATTGTCTCAAACGAGAAAAATTGTTTTTAAGAAAAACAATCTCAAACGATATCAATTTT
GTTTCAAGTGAAACAATTCAAATTTTTTCGTTTTGT
Found at i:22625 original size:18 final size:18
Alignment explanation
Indices: 22557--22621 Score: 103
Period size: 18 Copynumber: 3.6 Consensus size: 18
22547 GTTATCAGTA
22557 GTCCTTCGGGACAAAGTG
1 GTCCTTCGGGACAAAGTG
*
22575 GTCCTTCGGGACATAGTG
1 GTCCTTCGGGACAAAGTG
* *
22593 GTCCTTCAGGATAAAGTG
1 GTCCTTCGGGACAAAGTG
22611 GTCCTTCGGGA
1 GTCCTTCGGGA
22622 TAAATCTTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.20, C:0.22, G:0.32, T:0.26
Consensus pattern (18 bp):
GTCCTTCGGGACAAAGTG
Found at i:27003 original size:17 final size:17
Alignment explanation
Indices: 26981--27017 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
26971 CAAAATCTAC
*
26981 AAAATAAAATAAAAATA
1 AAAATAAAAGAAAAATA
*
26998 AAAATAAAGGAAAAATA
1 AAAATAAAAGAAAAATA
27015 AAA
1 AAA
27018 TTATTATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (17 bp):
AAAATAAAAGAAAAATA
Found at i:36551 original size:21 final size:21
Alignment explanation
Indices: 36502--36551 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
36492 TATATCAACG
*
36502 ATAAAAAAATAAAATAACTAA
1 ATAAAAAAATAAAATAACGAA
* *
36523 ACAGAAAAAA-AATATAACGAA
1 ATA-AAAAAATAAAATAACGAA
36544 ATAAAAAA
1 ATAAAAAA
36552 TAATAAGATA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 5 0.21
21 13 0.54
22 6 0.25
ACGTcount: A:0.76, C:0.06, G:0.04, T:0.14
Consensus pattern (21 bp):
ATAAAAAAATAAAATAACGAA
Found at i:36566 original size:17 final size:16
Alignment explanation
Indices: 36527--36568 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
36517 AACTAAACAG
36527 AAAAAAAATATAACGA
1 AAAAAAAATATAACGA
36543 AATAAAAAATAATAA-GA
1 AA-AAAAAAT-ATAACGA
36560 TAAAAAAAA
1 -AAAAAAAA
36569 AGTAAAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 2 0.09
17 15 0.65
18 6 0.26
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (16 bp):
AAAAAAAATATAACGA
Found at i:36567 original size:18 final size:17
Alignment explanation
Indices: 36527--36569 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
36517 AACTAAACAG
36527 AAAAAAAATATAACGAA
1 AAAAAAAATATAACGAA
*
36544 ATAAAAAATAATAA-GATA
1 AAAAAAAAT-ATAACGA-A
36562 AAAAAAAA
1 AAAAAAAA
36570 GTAAAACAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (17 bp):
AAAAAAAATATAACGAA
Found at i:37093 original size:16 final size:15
Alignment explanation
Indices: 37069--37112 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
37059 AAAAGGACTG
*
37069 AAATAAAAATGCAAGA
1 AAATTAAAATGCAA-A
*
37085 AAATTAAAAGGCAAA
1 AAATTAAAATGCAAA
*
37100 AAAATAAAATGCA
1 AAATTAAAATGCA
37113 TGAATTTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.68, C:0.07, G:0.11, T:0.14
Consensus pattern (15 bp):
AAATTAAAATGCAAA
Found at i:37357 original size:34 final size:34
Alignment explanation
Indices: 37300--37384 Score: 106
Period size: 34 Copynumber: 2.6 Consensus size: 34
37290 TTAGTTTGTG
* *
37300 CAAT-AAAATAAATA-TTAGTAAGTTAGTAAGAA
1 CAATAAAAATAAAAAGTTAGTAAGTTAATAAGAA
*
37332 CAATAAAAATAAAAAGTTAGTAAGTTAATATGAA
1 CAATAAAAATAAAAAGTTAGTAAGTTAATAAGAA
37366 CAA-ATAAAAT-AAAAGTTAG
1 CAATA-AAAATAAAAAGTTAG
37385 GGAGTTGTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
32 4 0.09
33 19 0.40
34 24 0.51
ACGTcount: A:0.59, C:0.04, G:0.12, T:0.26
Consensus pattern (34 bp):
CAATAAAAATAAAAAGTTAGTAAGTTAATAAGAA
Found at i:37559 original size:8 final size:8
Alignment explanation
Indices: 37544--37574 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
37534 ATAAAAATTA
37544 AAGTTAGT
1 AAGTTAGT
*
37552 ATGTTAGT
1 AAGTTAGT
37560 AAGTTAGT
1 AAGTTAGT
37568 AAGTTAG
1 AAGTTAG
37575 AAAAGTTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.39
Consensus pattern (8 bp):
AAGTTAGT
Found at i:48229 original size:140 final size:140
Alignment explanation
Indices: 47898--48326 Score: 604
Period size: 140 Copynumber: 3.1 Consensus size: 140
47888 TCTGGTCGTT
* * * *
47898 TTTAGGTA-AATTT-GGAGACAACACAATTCCTACATGATCAGGAAGTCTAGTTATCTAAGGATG
1 TTTAGGGATAATTTGGGAGACAACACAGTTCCTACATGATAAGGAAGTCTAGTTATCTAAGGATA
* *
47961 ACGATGCTCTTACGTGATGAGGAGATTTGGTCGGTGGATGACATTATTCCTA--TG-TGA-GACG
66 ACGATGCTCTTACGTGATGAGGAGATCTGGTCGGTGGATGACATTGTTCCTACGTGATGAGGACG
48022 TCTAGCCATC
131 TCTAGCCATC
* * * *
48032 TTTAGGGATAATTTGGGGGACAACACAGTTTCTACATGATAAGAAAGTCTGGTTATCTAAGGATA
1 TTTAGGGATAATTTGGGAGACAACACAGTTCCTACATGATAAGGAAGTCTAGTTATCTAAGGATA
* *
48097 ACGATGCTCCTACGTGATGAGGAGATCTGGTCGGTGGATGATATTGTTCCTACGTGATGAGGACG
66 ACGATGCTCTTACGTGATGAGGAGATCTGGTCGGTGGATGACATTGTTCCTACGTGATGAGGACG
48162 TCTAGCCATC
131 TCTAGCCATC
* * *
48172 TTTAGAGATAATTTGGGAGACAACACGGTTCCTACGTGATAAGGAAGTCTAGTTATCTAAGGATG
1 TTTAGGGATAATTTGGGAGACAACACAGTTCCTACATGATAAGGAAGTCTAGTTATCTAAGGAT-
* * * *
48237 AA--ACTGCTCTTATGTGATGATGAGATCTTGTCGGTGGATAACATTGTTCCTACGTGATGAGGA
65 AACGA-TGCTCTTACGTGATGAGGAGATCTGGTCGGTGGATGACATTGTTCCTACGTGATGAGGA
*
48300 TGTCTAGCCATC
129 CGTCTAGCCATC
48312 TTTAGGGATAATTTG
1 TTTAGGGATAATTTG
48327 TTGCAAGAGA
Statistics
Matches: 260, Mismatches: 27, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
134 7 0.03
135 5 0.02
136 91 0.35
138 2 0.01
139 4 0.02
140 149 0.57
141 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (140 bp):
TTTAGGGATAATTTGGGAGACAACACAGTTCCTACATGATAAGGAAGTCTAGTTATCTAAGGATA
ACGATGCTCTTACGTGATGAGGAGATCTGGTCGGTGGATGACATTGTTCCTACGTGATGAGGACG
TCTAGCCATC
Found at i:48750 original size:36 final size:37
Alignment explanation
Indices: 48680--48758 Score: 92
Period size: 37 Copynumber: 2.2 Consensus size: 37
48670 AAGGAAACTG
*
48680 TCTCAAGTGAGACAAAATTTGTTTTTAATAGAAACAA
1 TCTCAAGTGAGACAAAATTTGTTTTCAATAGAAACAA
*
48717 TCTCAAGTGAGATC-AATTTTG-TTTCAAGT-GAAACAA
1 TCTCAAGTGAGA-CAAAATTTGTTTTCAA-TAGAAACAA
*
48753 TTTCAA
1 TCTCAA
48759 AATTTGTGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
36 17 0.46
37 19 0.51
38 1 0.03
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (37 bp):
TCTCAAGTGAGACAAAATTTGTTTTCAATAGAAACAA
Found at i:57118 original size:108 final size:107
Alignment explanation
Indices: 56918--57265 Score: 498
Period size: 108 Copynumber: 3.2 Consensus size: 107
56908 TTATGTGTAC
*
56918 TATCGGCACTAAGTGTGCAATCCATGGAATTCATAATAAGTTTATGAATGACCATATCCGCACTA
1 TATCGGCACTAAGTGTGCAACCCATGGAATTCATAATAAGTTTATGAATGACCATAT-CGCACTA
* * *
56983 AGTGTGCAACCCACAGAATTCACAATAAATTTATGAACTACCG
65 AGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
* * * * * *
57026 TATCAGCACTAAGTGTGTAACCCACGGAATTCATAATAAGTTTTTGAATGATCATATCGATACTA
1 TATCGGCACTAAGTGTGCAACCCATGGAATTCATAATAAGTTTATGAATGACCATATCG-CACTA
* *
57091 AGTGTGCAACCCACGGAATTTATAATAAGTTTATGAACGACCG
65 AGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
* * * *
57134 TATCGACACTAAGTGTGCAACCCATGAAATTCATAATAAGTTTATGAACGACCATATTGGCACTA
1 TATCGGCACTAAGTGTGCAACCCATGGAATTCATAATAAGTTTATGAATGACCATA-TCGCACTA
*
57199 AGTATGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
65 AGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
* *
57242 TATCGGCACTACGTGTGCACCCCA
1 TATCGGCACTAAGTGTGCAACCCA
57266 AAGAACTTAT
Statistics
Matches: 210, Mismatches: 28, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
107 2 0.01
108 206 0.98
109 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (107 bp):
TATCGGCACTAAGTGTGCAACCCATGGAATTCATAATAAGTTTATGAATGACCATATCGCACTAA
GTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
Found at i:57278 original size:54 final size:54
Alignment explanation
Indices: 56918--57280 Score: 442
Period size: 54 Copynumber: 6.7 Consensus size: 54
56908 TTATGTGTAC
* ** *
56918 TATCGGCACTAAGTGTGCAATCCATGGAATTCATAATAAGTTTATGAATGACCA
1 TATCGGCACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCA
* * * * *
56972 TATCCGCACTAAGTGTGCAACCCACAGAATTCACAATAAATTTATGAACTACCG
1 TATCGGCACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCA
* * * * * *
57026 TATCAGCACTAAGTGTGTAACCCACGGAATTCATAATAAGTTTTTGAATGATCA
1 TATCGGCACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCA
** * * *
57080 TATCGATACTAAGTGTGCAACCCACGGAATTTATAATAAGTTTATGAACGACCG
1 TATCGGCACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCA
* *
57134 TATCGACACTAAGTGTGCAACCCA-TGAAATTCATAATAAGTTTATGAACGACCA
1 TATCGGCACTAAGTGTGCAACCCACAG-AATTCATAATAAGTTTATGAACGACCA
* * *
57188 TATTGGCACTAAGTATGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
1 TATCGGCACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCA
* * *
57242 TATCGGCACTACGTGTGCACCCCAAAGAACTT-ATAATAA
1 TATCGGCACTAAGTGTGCAACCCACAGAA-TTCATAATAA
57281 TTGAAAACAA
Statistics
Matches: 264, Mismatches: 42, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
53 1 0.00
54 260 0.98
55 3 0.01
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.27
Consensus pattern (54 bp):
TATCGGCACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCA
Found at i:58410 original size:23 final size:22
Alignment explanation
Indices: 58362--58410 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
58352 CCAGAATGTC
58362 AAGG-GGGAACCGATACCCCCA
1 AAGGAGGGAACCGATACCCCCA
* *
58383 CAGGAGGGAACCGATTCCCCCTA
1 AAGGAGGGAACCGATACCCCC-A
58406 AAGGA
1 AAGGA
58411 AAATTGTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 3 0.13
22 15 0.65
23 5 0.22
ACGTcount: A:0.33, C:0.31, G:0.29, T:0.08
Consensus pattern (22 bp):
AAGGAGGGAACCGATACCCCCA
Found at i:60347 original size:103 final size:103
Alignment explanation
Indices: 60019--60339 Score: 606
Period size: 103 Copynumber: 3.1 Consensus size: 103
60009 GTCGAGGGTC
*
60019 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACAAGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
60084 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
60122 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
60187 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
*
60225 TATGTGGTCCTTCGGGACATATATGTATTCTTTTGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
60290 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
60328 TATGTGGTCCTT
1 TATGTGGTCCTT
60340 ATGGACATTA
Statistics
Matches: 214, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 214 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
Found at i:60461 original size:23 final size:23
Alignment explanation
Indices: 60356--60453 Score: 169
Period size: 23 Copynumber: 4.3 Consensus size: 23
60346 ATTATTATAT
60356 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
*
60379 GGCACTACGGTGTAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
60402 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
60425 GGCACTACGGTGCAATTCTATGT
1 GGCACTACGGTGCAATTCTACGC
60448 GGCACT
1 GGCACT
60454 TCAGTGCATT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 71 1.00
ACGTcount: A:0.21, C:0.28, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:60469 original size:23 final size:23
Alignment explanation
Indices: 60346--60469 Score: 77
Period size: 23 Copynumber: 5.3 Consensus size: 23
60336 CCTTATGGAC
* *
60346 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATGTGGCACTACAGTGCA
* * * * *
60370 ATTCTACGCGGCACTACGGTGTA
1 ATTATATGTGGCACTACAGTGCA
* * * *
60393 ATTCTACGCGGCACTACGGTGCA
1 ATTATATGTGGCACTACAGTGCA
* * * *
60416 ATTCTACGCGGCACTACGGTGCA
1 ATTATATGTGGCACTACAGTGCA
* *
60439 ATTCTATGTGGCACTTCAGTGCA
1 ATTATATGTGGCACTACAGTGCA
*
60462 TTTATATG
1 ATTATATG
60470 AGTTGTGGTG
Statistics
Matches: 88, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
23 85 0.97
24 3 0.03
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (23 bp):
ATTATATGTGGCACTACAGTGCA
Found at i:63695 original size:24 final size:22
Alignment explanation
Indices: 63646--63687 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
63636 CCAGAATGTC
63646 AAGG-GGGAACCGATACCCCCA
1 AAGGAGGGAACCGATACCCCCA
* *
63667 CAGGAGGGAACCGATTCCCCC
1 AAGGAGGGAACCGATACCCCC
63688 CTAAAGGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.29, C:0.36, G:0.29, T:0.07
Consensus pattern (22 bp):
AAGGAGGGAACCGATACCCCCA
Found at i:65631 original size:103 final size:103
Alignment explanation
Indices: 65303--65623 Score: 552
Period size: 103 Copynumber: 3.1 Consensus size: 103
65293 GTCGAGGGTC
* * *
65303 TATGTGGTCTTTTGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTAAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* * *
65368 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
* *
65406 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAATATGTGTGAAGTTTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
65471 TTGATCCCTAGTATATGTATATGATTCTTAAAGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
*
65509 TATGTGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
65574 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
65612 TATGTGGTCCTT
1 TATGTGGTCCTT
65624 ATGGACATTA
Statistics
Matches: 205, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 205 1.00
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
Found at i:65684 original size:23 final size:23
Alignment explanation
Indices: 65640--65684 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
65630 ATTATTCTAC
*
65640 GGCACTACGGTGCAATTCTATGT
1 GGCACTACGGTGCAATTATATGT
* *
65663 GGCACTTCGGTGCATTTATATG
1 GGCACTACGGTGCAATTATATG
65685 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATATGT
Found at i:68455 original size:54 final size:54
Alignment explanation
Indices: 68365--68596 Score: 403
Period size: 54 Copynumber: 4.3 Consensus size: 54
68355 CTATGTGTAC
* *
68365 TATCGACACTAAGTGTGTAACCCACGAAATTCATAATAAGTTTATGAACGACCG
1 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
*
68419 TATCGGCACTAAGTGTGCAACCCAC-AGAATTTATAATAAGTTTATGAACGACCG
1 TATCGGCACTAAGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAACGACCG
*
68473 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
1 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
68527 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
1 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
*
68581 TATCGGCACTACGTGT
1 TATCGGCACTAAGTGT
68597 ACACCCCAAA
Statistics
Matches: 169, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
53 1 0.01
54 167 0.99
55 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (54 bp):
TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
Found at i:70525 original size:20 final size:20
Alignment explanation
Indices: 70483--70527 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
70473 ATATATTTCG
*
70483 ATTATTTATATTATCAATTT
1 ATTATTTATATAATCAATTT
*
70503 ATTATTTAT-TAATCACTTAT
1 ATTATTTATATAATCAATT-T
70523 ATTAT
1 ATTAT
70528 GAATTGATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.58
Consensus pattern (20 bp):
ATTATTTATATAATCAATTT
Found at i:70706 original size:31 final size:30
Alignment explanation
Indices: 70608--70706 Score: 126
Period size: 31 Copynumber: 3.2 Consensus size: 30
70598 GTTTGACCTA
* *
70608 TAAATTTTAAATAAAATACTAATTTATCTC
1 TAAATTTTAAATAAAATATTAATTTAACTC
* * *
70638 TAAATTTTTAATAAAATATTATTTTAACCCC
1 TAAATTTTAAATAAAATATTAATTTAA-CTC
70669 TAAATTTTAAATAAAATATTAATTTAACATC
1 TAAATTTTAAATAAAATATTAATTTAAC-TC
*
70700 TGAATTT
1 TAAATTT
70707 GATCAAAATC
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
30 24 0.41
31 34 0.59
ACGTcount: A:0.45, C:0.09, G:0.01, T:0.44
Consensus pattern (30 bp):
TAAATTTTAAATAAAATATTAATTTAACTC
Found at i:71456 original size:182 final size:182
Alignment explanation
Indices: 71149--71814 Score: 956
Period size: 182 Copynumber: 3.7 Consensus size: 182
71139 TATGTCGACA
* * * * * * *
71149 CTTTATAAAAATATATTGATCCACATCAATATAACAGGAAAAAATATGACAAAACCGATCACGAA
1 CTTTATAAATATGTATCGATCCACAACGATATAATAGGTAAAAATATGACAAAACCGATCACGAA
* * * * * * *
71214 AAGACAAAACCGATAAAGCGCTATCGGATATATTGCAAGTGTCGCTACTTTAATATAAGTATCTA
66 AAGACAAAACCGGTAAAGAGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGA
*
71279 CACATAGTGAATTTAAAGGAGAAGCAATTTTAGCGCCTATAAAGTGTCGATT
131 CACATAGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATT
* * * *
71331 CTTTATAAATATGTATCGATCTACAACGATATAATAGCTAAAAATATGACAAAACCGGTCAGGAA
1 CTTTATAAATATGTATCGATCCACAACGATATAATAGGTAAAAATATGACAAAACCGATCACGAA
*
71396 AAGACAAAACCGGTAAAGAGATACCGGATATATTGAAAGTGTTGATACTTTAATATAAGTATCGA
66 AAGACAAAACCGGTAAAGAGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGA
*
71461 CACATAGTGAATTTAAAGGAGAAGTAGTTTTAGCGCCTATAAAGTGTCGATT
131 CACATAGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATT
* *
71513 CTTTATAAATATATATCGATCCACAACGATATAACT-GGTAAAAATATGACAAAACCGATCAGGA
1 CTTTATAAATATGTATCGATCCACAACGATATAA-TAGGTAAAAATATGACAAAACCGATCACGA
* *
71577 AAAGACAAAACCGGTAAAGAGATACTGGATATATTGAAAGTGTCAATACTTTAATATAAGTATCG
65 AAAGACAAAACCGGTAAAGAGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCG
* * * *
71642 ACACATTGTAAATTTAAAGGAGAAGCAGTTTTAGAGCATATAAAGTGTCGATT
130 ACACATAGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATT
* * * * * * *
71695 CTTTAAAAAAATGTATCGATCCATAACGATATAAAAGGTAAAAATATGATAAAACCGATCTCTAA
1 CTTTATAAATATGTATCGATCCACAACGATATAATAGGTAAAAATATGACAAAACCGATCACGAA
* * * *
71760 ATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAATA
66 AAGACAAAACCGGTAAAGAGATACCGGATATATTGAAAGTGTCGATACTTTAATA
71815 AGTACGCGTA
Statistics
Matches: 434, Mismatches: 48, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
182 433 1.00
183 1 0.00
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
CTTTATAAATATGTATCGATCCACAACGATATAATAGGTAAAAATATGACAAAACCGATCACGAA
AAGACAAAACCGGTAAAGAGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGA
CACATAGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATT
Found at i:74228 original size:21 final size:21
Alignment explanation
Indices: 74204--74247 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
74194 AAGATAATCA
*
74204 AGAGTCGAAGAAAAACTTGAG
1 AGAGTCAAAGAAAAACTTGAG
* *
74225 AGAGTCAAAGAGACACTTGAG
1 AGAGTCAAAGAAAAACTTGAG
74246 AG
1 AG
74248 GCATAAGAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.11, G:0.30, T:0.14
Consensus pattern (21 bp):
AGAGTCAAAGAAAAACTTGAG
Found at i:74318 original size:33 final size:33
Alignment explanation
Indices: 74281--74380 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
74271 AAATAAATGG
*
74281 AGTGGTGAAAGAAGTTGTGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
* *
74314 AGTGGTGAAAGAAGTTGAGGTATTGAGAGGTGA
1 AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
*
74347 AGTAGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
74380 A
1 A
74381 CTTAAGATGG
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.30, C:0.00, G:0.45, T:0.25
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
Found at i:74591 original size:18 final size:18
Alignment explanation
Indices: 74568--74602 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
74558 AAATATGAAT
74568 AAGAAAAGAGGGAGGAAG
1 AAGAAAAGAGGGAGGAAG
*
74586 AAGAAAAGATGGAGGAA
1 AAGAAAAGAGGGAGGAA
74603 ATGAGGAGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.40, T:0.03
Consensus pattern (18 bp):
AAGAAAAGAGGGAGGAAG
Found at i:76169 original size:19 final size:19
Alignment explanation
Indices: 76107--76163 Score: 105
Period size: 19 Copynumber: 3.0 Consensus size: 19
76097 AATGTAGAGT
*
76107 TAATTTTGTATAAGATTTA
1 TAATTTTGTATACGATTTA
76126 TAATTTTGTATACGATTTA
1 TAATTTTGTATACGATTTA
76145 TAATTTTGTATACGATTTA
1 TAATTTTGTATACGATTTA
76164 AGATTTATGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.53
Consensus pattern (19 bp):
TAATTTTGTATACGATTTA
Found at i:77475 original size:200 final size:196
Alignment explanation
Indices: 76503--77823 Score: 1518
Period size: 199 Copynumber: 6.6 Consensus size: 196
76493 ACATAGGTAA
* * * * *
76503 GCATATGTGTCGATACGTTTATAAAACGTATCGATCCCAAAAACATCGAAACCCATAATTATAAT
1 GCATAAGTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAAT
* * * *
76568 ATAATAAGTAATTTTGTAATATAACAGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACA
66 GTAATAGGTAATTTT-TAATATAACTGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACA
** * * *
76633 GAATGTATCGACACTTTT-TCGTTATGTGTCGATACTTTTTGT-CAGAATGAATGCCCAAAATGA
130 -AATGTATCGACACTTTTATAATT-TGTGTCGATAC-TTTTGTCCAGAAGGAATGCCCAAAAGGG
76696 TGA-AC
192 T-ACAC
* ** *
76701 GCATAACGTGTTGATACATTTATTGAAAGTGTCGATCCCAGAAACACCGAAACCCATAATTATAA
1 GCATAA-GTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAA
* * * *
76766 TGTAATAGGTAATTTTTCAATATAACTGGTATAATTAAACCAGTTTTATGAGAGAATATGTCTAC
65 TGTAATAGGTAATTTTT-AATATAACTGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTAC
* * * *
76831 ATAATGTATCGACACTTCTAGAATTTGTATCGATACTGTTTTTCCAGAAGGAATGCCCAAAAGGG
129 A-AATGTATCGACACTTTTATAATTTGTGTCGATACT-TTTGTCCAGAAGGAATGCCCAAAAGGG
*
76896 TGCAC
192 TACAC
* *
76901 GCAAAAAGTGTCGATACATTTATAAACAAGTATCGATCCCAGAAACATCGAAACCCATAATTATA
1 GC-ATAAGTGTCGATACATTTATAAA-AAGTGTCGATCCCAGAAACATCGAAACCCATAATTATA
* * * *
76966 ATGTAATAGGTAATTTTTCAATGTAA-TCGGTATACATATACTGGTTTTATGAGAGAATAGGTGT
64 ATGTAATAGGTAATTTTT-AATATAACT-GGTATAAATATACCGGTTTTATGAGAGAATAGGTCT
*
77030 ACAATATGTATCGACACTTTTATAATTTGTGTCGATACTTTTGGTCCAGAAAGAATGCCCAAAAA
127 ACAA-ATGTATCGACACTTTTATAATTTGTGTCGATACTTTT-GTCCAGAAGGAATGCCC-AAAA
*
77095 GGGTGCAC
189 GGGTACAC
* * *
77103 -CACTAAGTGTCGATACATTAATAAGAAGTGTCGATCCCAG--A-ATCGAAAACCATAATTATAA
1 GCA-TAAGTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAA
* * ** *
77164 TGTAATAGGTAATTTTCAATGTAACTGGTATACTTATACCGGTTTTATGAGAGAATAGGTGTACA
65 TGTAATAGGTAATTTTTAATATAACTGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACA
* * *
77229 ATATGTATCAACACTTGTGTAATTTGTGTCGATACTTTTGGTCCAGAAGGAATGCCCAAAAAGGG
130 A-ATGTATCGACACTTTTATAATTTGTGTCGATACTTTT-GTCCAGAAGGAATGCCC-AAAAGGG
77294 TACAC
192 TACAC
* * *
77299 -CACTAAGTGTCGATACATTTATACAAAGTGTCGATCCTAAAAACATCGAAACCCATAATTATAA
1 GCA-TAAGTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAA
*
77363 TGTAATAGGTAATTTTGTAATATAACTGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTAC
65 TGTAATAGGTAATTTT-TAATATAACTGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTAC
* * ** * *
77428 ATAATGTATCGACACTTTTTTATTTTGTGTCGATACGTTTTGTCCAGATTGAATGCCCAAAATGA
129 A-AATGTATCGACACTTTTATAATTTGTGTCGATAC-TTTTGTCCAGAAGGAATGCCCAAAAGGG
77493 TGA-AC
192 T-ACAC
* * * * *
77498 GCATAAAGTGTCGATATATTTATAAAAATTGTCGATACCAGAAACATCAAAACCCATAAATATAA
1 GCAT-AAGTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAA
** * *
77563 TGTAATAGGTAAATTTACAATATAACCGGTATAACTATACCGGTTTTATGAGAGAATAGGTCTAC
65 TGTAATAGGT-AATTTTTAATATAACTGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTAC
* * ** *
77628 AACATGTATCGAAACTTGT-GGATTTGGTATCGATACTTTTTGTCCAGAAGGAATG-CC-AAAGG
129 AA-ATGTATCGACACTTTTATAATTT-GTGTCGATAC-TTTTGTCCAGAAGGAATGCCCAAAAGG
* *
77690 GTTGCAT
191 G-TACAC
* * *
77697 GCATAAAGTGTCGATAC-TCTTTTAAAAAGTGTCGATCCCAGGAACATCGAAACCGATAATTATA
1 GCAT-AAGTGTCGATACAT-TTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATA
* * * * *
77761 ATGTAATAGGTAAATTTTAAATGTAACTTGTATAAATATACTGGTTTTATGAGAAAATAGGTC
64 ATGTAATAGGT-AATTTTTAATATAACTGGTATAAATATACCGGTTTTATGAGAGAATAGGTC
77824 ATCATAAAGT
Statistics
Matches: 972, Mismatches: 122, Indels: 57
0.84 0.11 0.05
Matches are distributed among these distances:
196 144 0.15
197 36 0.04
198 14 0.01
199 297 0.31
200 297 0.31
201 172 0.18
202 12 0.01
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (196 bp):
GCATAAGTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAAT
GTAATAGGTAATTTTTAATATAACTGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAA
ATGTATCGACACTTTTATAATTTGTGTCGATACTTTTGTCCAGAAGGAATGCCCAAAAGGGTACA
C
Found at i:77812 original size:199 final size:199
Alignment explanation
Indices: 76509--77861 Score: 1567
Period size: 200 Copynumber: 6.8 Consensus size: 199
76499 GTAAGCATAT
* * * * *
76509 GTGTCGATACGTTTATAAAACGTATCGATCCCAAAAACATCGAAACCCATAATTATAATATAATA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * * *
76574 AGT-AATTTTGTAATATAACAGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACAGAATG
66 GGTAAATTTT-CAATATAACTGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATG
*** * * * *
76638 TATCGACACTTTTTCGTTATGTGTCGATACTTTTTGT-CAGAATGAATGCCCAAAATGATGAACG
130 TATCGACACTTTTGAATT-TGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAGGGTGCACG
*
76702 CATAAC
194 CATAAA
* ** *
76708 GTGTTGATACATTTATTGAAAGTGTCGATCCCAGAAACACCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * * *
76773 GGTAATTTTTCAATATAACTGGTATAATTAAACCAGTTTTATGAGAGAATATGTCTACATAATGT
66 GGTAAATTTTCAATATAACTGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
* *
76838 ATCGACACTTCTAGAATTTGTATCGATACTGTTTT-TCCAGAAGGAATGCCCAAAAGGGTGCACG
131 ATCGACACTT-TTGAATTTGTGTCGATACT-TTTTGTCCAGAAGGAATGCCCAAAAGGGTGCACG
*
76902 CAAAAA
194 CATAAA
*
76908 GTGTCGATACATTTATAAACAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAAT
1 GTGTCGATACATTTATAAA-AAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAAT
* * * * *
76973 AGGTAATTTTTCAATGTAA-TCGGTATACATATACTGGTTTTATGAGAGAATAGGTGTACA-ATA
65 AGGTAAATTTTCAATATAACT-GGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATA-A
* * *
77036 TGTATCGACACTTTTATAATTTGTGTCGATACTTTTGGTCCAGAAAGAATGCCCAAAAAGGGTGC
128 TGTATCGACACTTTT-GAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCC-AAAAGGGTGC
77101 AC-CACT-AA
191 ACGCA-TAAA
* * *
77109 GTGTCGATACATTAATAAGAAGTGTCGATCCCAG--A-ATCGAAAACCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* ** *
77171 GGT-AATTTTCAATGTAACTGGTATACTTATACCGGTTTTATGAGAGAATAGGTGTACA-ATATG
66 GGTAAATTTTCAATATAACTGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATA-ATG
* * * *
77234 TATCAACACTTGTGTAATTTGTGTCGATACTTTTGGTCCAGAAGGAATGCCCAAAAAGGGTACAC
130 TATCGACACTTTTG-AATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCC-AAAAGGGTGCAC
77299 -CACT-AA
193 GCA-TAAA
* * *
77305 GTGTCGATACATTTATACAAAGTGTCGATCCTAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* *
77370 GGT-AATTTTGTAATATAACTGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATG
66 GGTAAATTTT-CAATATAACTGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATG
* * * ** * * *
77434 TATCGACACTTTTTTATTTTGTGTCGATACGTTTTGTCCAGATTGAATGCCCAAAATGATGAACG
130 TATCGACAC-TTTTGAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAGGGTGCACG
77499 CATAAA
194 CATAAA
* * * * *
77505 GTGTCGATATATTTATAAAAATTGTCGATACCAGAAACATCAAAACCCATAAATATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * *
77570 GGTAAATTTACAATATAACCGGTATAACTATACCGGTTTTATGAGAGAATAGGTCTACA-ACATG
66 GGTAAATTTTCAATATAACTGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATA-ATG
* * * * *
77634 TATCGAAACTTGTGGATTTGGTATCGATACTTTTTGTCCAGAAGGAATG-CC-AAAGGGTTGCAT
130 TATCGACACTTTTGAATTT-GTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAGGG-TGCAC
77697 GCATAAA
193 GCATAAA
* * *
77704 GTGTCGATAC-TCTTTTAAAAAGTGTCGATCCCAGGAACATCGAAACCGATAATTATAATGTAAT
1 GTGTCGATACAT-TTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAAT
* * * * * *
77768 AGGTAAATTTTAAATGTAACTTGTATAAATATACTGGTTTTATGAGAAAATAGGTC-ATCATAAA
65 AGGTAAATTTTCAATATAACTGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTA-CATAAT
* * * *
77832 GTATCAACAATTATTAAATTTGTGTTGATA
129 GTATCGACACTT-TTGAATTTGTGTCGATA
77862 TCATTTTAAA
Statistics
Matches: 989, Mismatches: 136, Indels: 58
0.84 0.11 0.05
Matches are distributed among these distances:
196 149 0.15
197 30 0.03
198 8 0.01
199 311 0.31
200 312 0.32
201 167 0.17
202 12 0.01
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.32
Consensus pattern (199 bp):
GTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
GGTAAATTTTCAATATAACTGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
ATCGACACTTTTGAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAGGGTGCACGCA
TAAA
Found at i:80367 original size:11 final size:11
Alignment explanation
Indices: 80351--80391 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
80341 TGTTGTGGGT
80351 ACATTATTTGA
1 ACATTATTTGA
80362 ACATTATTATGTA
1 ACATTATT-TG-A
80375 TACATTATTTGA
1 -ACATTATTTGA
80387 ACATT
1 ACATT
80392 GTTATGTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 13 0.48
12 3 0.11
13 3 0.11
14 8 0.30
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.46
Consensus pattern (11 bp):
ACATTATTTGA
Found at i:80384 original size:25 final size:25
Alignment explanation
Indices: 80350--80401 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
80340 TTGTTGTGGG
80350 TACATTATTTGAACATTATTATGTA
1 TACATTATTTGAACATTATTATGTA
*
80375 TACATTATTTGAACATTGTTATGTA
1 TACATTATTTGAACATTATTATGTA
80400 TA
1 TA
80402 AATTTCTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.48
Consensus pattern (25 bp):
TACATTATTTGAACATTATTATGTA
Found at i:80683 original size:15 final size:15
Alignment explanation
Indices: 80663--80701 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
80653 TCTCCACAAC
* *
80663 AAAGTTTTCATACAT
1 AAAGTTTCCAAACAT
*
80678 AAAGTTTCCAAACTT
1 AAAGTTTCCAAACAT
80693 AAAGTTTCC
1 AAAGTTTCC
80702 CATAAAGTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (15 bp):
AAAGTTTCCAAACAT
Found at i:81047 original size:201 final size:199
Alignment explanation
Indices: 80702--81588 Score: 1012
Period size: 201 Copynumber: 4.4 Consensus size: 199
80692 TAAAGTTTCC
* ** * *
80702 CATAAAGTGTCGATACAGTTTTAAAAAGTATCGATATCAGAAACATCGAAATCC-ATAAATATAA
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAA-CCGATAATTATAA
* * * * **
80766 TGTAAAAGGTAAATTTACAATGTAACCGGTATAACTAAACCGATTTTATAAGAGAATAGGTCTAC
65 TGTAATAGGTAAATTTACAATATAACCGGTATAAATAAACAG-TTTTATGTGAGAATAGGTCTAC
* * * * * * * *
80831 AAAATTTATCGACACTTCTGGAAT-TTGTATCGATACTGTTTGTCCAGAAGGAATGCCCATAACG
129 ATAATATATCGACACTT-TTGAATGTTGTGTCGATACTTTTTGTACAGAATGAATGCCCA-AAAG
* *
80895 GGTGCACT
192 GGTGAACG
* * * *
80903 CATAAAGTGTCGAAACATTTTTAAAACGTATCGATCCAAAAAACATCGAAACCTATAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
* ** * *
80968 GTAATAGGTAATTTTTTAATATAATCGGTATAAATATAACAGTTTTATGTGAGAATAGGTCTATA
66 GTAATAGGTAAATTTACAATATAACCGGTATAAATA-AACAGTTTTATGTGAGAATAGGTCTACA
* * * * *
81033 TAATATGTCGACACTTTTTAATGTTATGTCGATACTTTTTGTATAGAATGAATTCCCAAAAGGGT
130 TAATATATCGACACTTTTGAATGTTGTGTCGATACTTTTTGTACAGAATGAATGCCCAAAAGGGT
81098 GAACG
195 GAACG
* *
81103 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAC
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
* * * * * *
81168 GTAATAGGTAAATTTACAATGTAACCGGTATAAATAAACCAATTTTATGTTAAAATATGT-GAGC
66 GTAATAGGTAAATTTACAATATAACCGGTATAAATAAA-CAGTTTTATGTGAGAATAGGTCTA-C
* ** * *
81232 ATAATGTATAAACACGTTTT-AGAT-TTGTGTCGATACTTTTTGTCCAAAATGAATG-CCAAAAG
129 ATAATATATCGACAC-TTTTGA-ATGTTGTGTCGATACTTTTTGTACAGAATGAATGCCCAAAAG
*
81294 GGTTGTACG
192 GG-TGAACG
* * * *
81303 CATAAAGTGTTGATACATGTTTTAAAACGTATCGATCCCAAAAACATCAAAACCAATAATTATAA
1 CATAAAGTGTCGATACAT-TTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAA
* * * * * * * * *
81368 TATAATAGATAATTTTATAATATAACTGGTATATATATACCGGTTTTATGTGAGAATAGGTCTAT
65 TGTAATAGGTAAATTTACAATATAACCGGTATAAATA-AACAGTTTTATGTGAGAATAGGTCTAC
* * * * *
81433 ATAATATGTCGACACTTTTTAATGTTGTGTCGATACTTTTTGAACATAATGAATACCCAAAAGGG
129 ATAATATATCGACACTTTTGAATGTTGTGTCGATACTTTTTGTACAGAATGAATGCCCAAAAGGG
81498 TGAACG
194 TGAACG
*
81504 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
81569 GTAATAGGTAAATTTACAAT
66 GTAATAGGTAAATTTACAAT
81589 GTATCGACAC
Statistics
Matches: 572, Mismatches: 100, Indels: 29
0.82 0.14 0.04
Matches are distributed among these distances:
199 12 0.02
200 247 0.43
201 298 0.52
202 15 0.03
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (199 bp):
CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
GTAATAGGTAAATTTACAATATAACCGGTATAAATAAACAGTTTTATGTGAGAATAGGTCTACAT
AATATATCGACACTTTTGAATGTTGTGTCGATACTTTTTGTACAGAATGAATGCCCAAAAGGGTG
AACG
Found at i:81445 original size:401 final size:401
Alignment explanation
Indices: 80702--81591 Score: 1281
Period size: 401 Copynumber: 2.2 Consensus size: 401
80692 TAAAGTTTCC
** * *
80702 CATAAAGTGTCGATACAGTTT-TAAAAAGTATCGATATCAGAAACATCGAAATCC-ATAAATATA
1 CATAAAGTGTCGATACA-TTTATAAAAAGTATCGATCCCAAAAACATCGAAA-CCGATAATTATA
* * * * *
80765 ATGTAAAAGGTAAATTTACAATGTAACCGGTATAACTAAACCGATTTTATAAGAGAATAGGTCTA
64 ATGTAATAGGTAAATTTACAATGTAACCGGTATAAATAAACCAATTTTATAAGAAAATAGGTCGA
* ** * * *
80830 CAAAATTTATCGACACTTCTGGAATTTGTATCGATACTGTTTGTCCAGAAGGAATGCCCATAACG
129 CAAAATGTATAAACACTTCTAGAATTTGTATCGATACTGTTTGTCCAAAAGGAATGCCCATAAAG
* * *
80895 GGTGCACTCATAAAGTGTCGAAACATTTTTAAAACGTATCGATCCAAAAAACATCGAAACCTATA
194 GGTGCACGCATAAAGTGTCGAAACATTTTTAAAACGTATCGATCCAAAAAACATCAAAACCAATA
* * *
80960 ATTATAATGTAATAGGTAATTTTTTAATATAATCGGTATAAATATAACAGTTTTATGTGAGAATA
259 ATTATAATATAATAGATAATTTTATAATATAATCGGTATAAATATAACAGTTTTATGTGAGAATA
* * *
81025 GGTCTATATAATATGTCGACACTTTTTAATGTTATGTCGATACTTTTTGTATAGAATGAATTCCC
324 GGTCTATATAATATGTCGACACTTTTTAATGTTATGTCGATACTTTTTGAACAGAATGAATACCC
81090 AAAAGGGTGAACG
389 AAAAGGGTGAACG
*
81103 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAC
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
*** *
81168 GTAATAGGTAAATTTACAATGTAACCGGTATAAATAAACCAATTTTATGTTAAAATATGT-GAGC
66 GTAATAGGTAAATTTACAATGTAACCGGTATAAATAAACCAATTTTATAAGAAAATAGGTCGA-C
* * * * *
81232 ATAATGTATAAACACGTTTTAG-ATTTGTGTCGATACTTTTTGTCCAAAATGAATG-CCA-AAAG
130 AAAATGTATAAACAC-TTCTAGAATTTGTATCGATACTGTTTGTCCAAAAGGAATGCCCATAAAG
* * * *
81294 GGTTGTACGCATAAAGTGTTGATACATGTTTTAAAACGTATCGATCCCAAAAACATCAAAACCAA
194 GG-TGCACGCATAAAGTGTCGAAACAT-TTTTAAAACGTATCGATCCAAAAAACATCAAAACCAA
* * *
81359 TAATTATAATATAATAGATAATTTTATAATATAA-CTGGTATATATATACCGGTTTTATGTGAGA
257 TAATTATAATATAATAGATAATTTTATAATATAATC-GGTATAAATATAACAGTTTTATGTGAGA
* *
81423 ATAGGTCTATATAATATGTCGACACTTTTTAATGTTGTGTCGATACTTTTTGAACATAATGAATA
321 ATAGGTCTATATAATATGTCGACACTTTTTAATGTTATGTCGATACTTTTTGAACAGAATGAATA
81488 CCCAAAAGGGTGAACG
386 CCCAAAAGGGTGAACG
81504 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
81569 GTAATAGGTAAATTTACAATGTA
66 GTAATAGGTAAATTTACAATGTA
81592 TCGACACGTT
Statistics
Matches: 438, Mismatches: 44, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
399 5 0.01
400 30 0.07
401 399 0.91
402 4 0.01
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (401 bp):
CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
GTAATAGGTAAATTTACAATGTAACCGGTATAAATAAACCAATTTTATAAGAAAATAGGTCGACA
AAATGTATAAACACTTCTAGAATTTGTATCGATACTGTTTGTCCAAAAGGAATGCCCATAAAGGG
TGCACGCATAAAGTGTCGAAACATTTTTAAAACGTATCGATCCAAAAAACATCAAAACCAATAAT
TATAATATAATAGATAATTTTATAATATAATCGGTATAAATATAACAGTTTTATGTGAGAATAGG
TCTATATAATATGTCGACACTTTTTAATGTTATGTCGATACTTTTTGAACAGAATGAATACCCAA
AAGGGTGAACG
Found at i:81742 original size:152 final size:151
Alignment explanation
Indices: 81441--81743 Score: 466
Period size: 152 Copynumber: 2.0 Consensus size: 151
81431 ATATAATATG
* *
81441 TCGACACTTTTTAATGTTGTGTCGATACTTTTTGAACATAATGAATACCCAAAAGGGTGAACGCA
1 TCGACACGTTTTAATGTTGTGTCGATACTTTTTGAACAAAATGAATACCCAAAAGGGTGAACGCA
* * *
81506 TAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGT
66 TAAAGTGTCAATACATTTATAAAAAGTATCAATCCAAAAAACATCGAAACCGATAATTATAATGT
81571 AATAGGTAAATTTACAATGTA
131 AATAGGTAAATTTACAATGTA
** * *
81592 TCGACACGTTTTAGAT-TTGTGTCGATACTTTTTGTCCAAAATGAAT-GCCAAAAGGGTTGCACG
1 TCGACACGTTTTA-ATGTTGTGTCGATACTTTTTGAACAAAATGAATACCCAAAAGGG-TGAACG
* *
81655 TATAAAGTGTCAATACATGTTTTAAAAAGTATCAATCCAAAAAACATCGAAACCGATAATTATAA
64 CATAAAGTGTCAATACAT-TTATAAAAAGTATCAATCCAAAAAACATCGAAACCGATAATTATAA
81720 TGTAATAGGTAAATTTACAATGTA
128 TGTAATAGGTAAATTTACAATGTA
81744 ACTGTTTTAT
Statistics
Matches: 138, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
150 9 0.07
151 60 0.43
152 69 0.50
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (151 bp):
TCGACACGTTTTAATGTTGTGTCGATACTTTTTGAACAAAATGAATACCCAAAAGGGTGAACGCA
TAAAGTGTCAATACATTTATAAAAAGTATCAATCCAAAAAACATCGAAACCGATAATTATAATGT
AATAGGTAAATTTACAATGTA
Found at i:86284 original size:199 final size:197
Alignment explanation
Indices: 85891--86778 Score: 957
Period size: 199 Copynumber: 4.5 Consensus size: 197
85881 TAAATGTGTA
* * *
85891 TCGATACATTTTCTAAAAGTATCGA-CCCAAAAAACATCGAAACCAATAATTATAATGCAATAGG
1 TCGATACATTAT-TAAAAGTATCGATCCCAAAAAACATCGAAACCGATAATTATAATGTAATAGG
* * *
85955 TAAATTAACAATGTAACTGGTATAAATATACCGGTTAATTA-G-AAAATAGGTCAACATAATGTA
65 TAAATTTACAATGTAACCGGTATAAATATACCGATT--TTATGAAAAATAGGTC-ACATAATGTA
* * * * * *
86018 TCGACACTTGTGTAATTTGTGTCGATACTTATTGTCCAGAATAAATGCCCAAACGAGGTGCACGC
127 TCGACACTTAT-TAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAGGA-TTGCACGC
86083 ATAAAGTG
190 ATAAAGTG
* * *
86091 TTGATACAATTATTAAAAGTATTGATCCCAATAAA-A-CGAAACCGATAATTATAATGTAATAGG
1 TCGATAC-ATTATTAAAAGTATCGATCCCAAAAAACATCGAAACCGATAATTATAATGTAATAGG
* *
86154 TAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGTTAAAATAGGTGAGCATAATGTAT
65 TAAATTTACAATGTAACCGGTATAAATATACCGATTTTATG-AAAAATAGGTCA-CATAATGTAT
* * *
86219 TGACACGTT-TTATATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAAGGATTGTACGCA
128 CGACAC-TTATTA-ATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAGGATTGCACGCA
86283 TAAAGTG
191 TAAAGTG
* * * * * *
86290 TTGATACATGTTTTAAAAAGTATCGAT-CCAAAAAATATCGAAA-CAAAAATTATAATGTAATAT
1 TCGATACAT-TATT-AAAAGTATCGATCCCAAAAAACATCGAAACCGATAATTATAATGTAATAG
* *
86353 GT-AATTTACAATGTAACCGGTATAAATATACTGATTTTATGAGAAAATAGGTCATCATAAAGTA
64 GTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGA-AAAATAGGTCA-CATAATGTA
* * * * * *
86417 TCGAAACTTATTAAATTTGTGTTGATACATTTTGTCCATAATGAATGCCAAACGGGTT-CACGCA
127 TCGACACTTATT-AATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAGGATTGCACGCA
86481 TAAAGTG
191 TAAAGTG
* * * *
86488 TCGATACATTTATTAAAACTATCGATCCC-AAAAATATCGAAACCGATAATTACAATGTGATAGG
1 TCGATACA-TTATTAAAAGTATCGATCCCAAAAAACATCGAAACCGATAATTATAATGTAATAGG
* * * * * * *
86552 TAAATTTACAATGTATCAGATAAAAATATATCGGTTTTATGAAAAAATAGGTCTAAATAATGTAT
65 TAAATTTACAATGTAACCGGTATAAATATACCGATTTTATG-AAAAATAGGTC-ACATAATGTAT
* * * *
86617 CGACACTCT-TTAAGTTTATGTCGATACTTGTT-TCCAGAATGAATGTCCAACGAGG--TGCATG
128 CGACACT-TATTAA-TTTGTGTCGATACTTTTTGTCCAGAATGAATG-CCAA-AAGGATTGCACG
86678 CATAAAGTG
189 CATAAAGTG
* *
86687 TCGATACA-T-TTAAAGTTGTATCGAT-CCAAAAAACATCGAAACCGATAATTATAATGTAATAA
1 TCGATACATTATTAAA--AGTATCGATCCCAAAAAACATCGAAACCGATAATTATAATGTAATAG
*
86749 GTAAATTTACAATGTTACCGGTATAAATAT
64 GTAAATTTACAATGTAACCGGTATAAATAT
86779 CGATTTACTT
Statistics
Matches: 585, Mismatches: 74, Indels: 60
0.81 0.10 0.08
Matches are distributed among these distances:
196 5 0.01
197 30 0.05
198 123 0.21
199 291 0.50
200 117 0.20
201 19 0.03
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (197 bp):
TCGATACATTATTAAAAGTATCGATCCCAAAAAACATCGAAACCGATAATTATAATGTAATAGGT
AAATTTACAATGTAACCGGTATAAATATACCGATTTTATGAAAAATAGGTCACATAATGTATCGA
CACTTATTAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAGGATTGCACGCATAAAG
TG
Found at i:86575 original size:20 final size:20
Alignment explanation
Indices: 86537--86575 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
86527 AAACCGATAA
*
86537 TTACAATGTGATAGGTAAAT
1 TTACAATGTGATAGATAAAT
86557 TTACAATGT-ATCAGATAAA
1 TTACAATGTGAT-AGATAAA
86576 AATATATCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (20 bp):
TTACAATGTGATAGATAAAT
Found at i:86641 original size:398 final size:398
Alignment explanation
Indices: 85891--86778 Score: 1113
Period size: 398 Copynumber: 2.2 Consensus size: 398
85881 TAAATGTGTA
* * *
85891 TCGATACATTTTCT-AAAAGTATCGACCCAAAAAACATCGAAACCAATAATTATAATGCAATAGG
1 TCGATACATTTT-TAAAAAGTATCGATCCAAAAAACATCGAAACCAATAATTATAATGTAATAAG
* * * *
85955 TAAATTAACAATGTAACTGGTATAAATATACCGGTTAATTAGAAAATAGGTCAACATAATGTATC
65 TAAATTTACAATGTAACCGGTATAAATATACCGGTTAATGAGAAAATAGGTCAACATAAAGTATC
* *
86020 GACACTTGTGTAATTTGTGTCGATACTTATTGTCCAGAATAAATGCCCAAACGAGGTGCACGCAT
130 GAAACTTATGTAATTTGTGTCGATACTTATTGTCCAGAATAAATGCCCAAACGAGGTGCACGCAT
* * * *
86085 AAAGTGTTGATACAATTATTAAAAGTATTGATCCCAATAAAACGAAACCGATAATTATAATGTAA
195 AAAGTGTCGATACAATTATTAAAACTATCGATCCCAATAAAACGAAACCGATAATTACAATGTAA
* * * ** *
86150 TAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGTTAAAATAGGTGAGCATAAT
260 TAGGTAAATTTACAATGTAACAGATAAAAATATACCGATTTTATGAAAAAATAGGTGAGAATAAT
* * * *
86215 GTATTGACACGTTTTATATTTGTGTCGATACTTTTTGTCCAAAATGAATG-CCAA-AAGGATTGT
325 GTATCGACACGTTTTATATTTATGTCGATACTTGTT-TCCAAAATGAATGTCCAACAAGG--TGC
86278 ACGCATAAAGTG
387 ACGCATAAAGTG
* * * *
86290 TTGATACATGTTTTAAAAAGTATCGATCCAAAAAATATCGAAA-CAAAAATTATAATGTAATATG
1 TCGATACAT-TTTTAAAAAGTATCGATCCAAAAAACATCGAAACCAATAATTATAATGTAATAAG
* * * *
86354 T-AATTTACAATGTAACCGGTATAAATATACTGATTTTATGAGAAAATAGGTCATCATAAAGTAT
65 TAAATTTACAATGTAACCGGTATAAATATACCG-GTTAATGAGAAAATAGGTCAACATAAAGTAT
* * * *
86418 CGAAACTTAT-TAAATTTGTGTTGATACATT-TTGTCCATAATGAATG-CCAAACG-GGTTCACG
129 CGAAACTTATGT-AATTTGTGTCGATAC-TTATTGTCCAGAATAAATGCCCAAACGAGGTGCACG
*
86479 CATAAAGTGTCGATACATTTATTAAAACTATCGATCCCAA-AAATATCGAAACCGATAATTACAA
192 CATAAAGTGTCGATACAATTATTAAAACTATCGATCCCAATAAA-A-CGAAACCGATAATTACAA
* * * * *
86543 TGTGATAGGTAAATTTACAATGTATCAGATAAAAATATATCGGTTTTATGAAAAAATAGGTCTA-
255 TGTAATAGGTAAATTTACAATGTAACAGATAAAAATATACCGATTTTATGAAAAAATAGGT-GAG
* *
86607 AATAATGTATCGACAC-TCTTTA-AGTTTATGTCGATACTTGTTTCCAGAATGAATGTCCAACGA
319 AATAATGTATCGACACGT-TTTATA-TTTATGTCGATACTTGTTTCCAAAATGAATGTCCAACAA
*
86670 GGTGCATGCATAAAGTG
382 GGTGCACGCATAAAGTG
** *
86687 TCGATACA--TTTAAAGTTGTATCGATCCAAAAAACATCGAAACCGATAATTATAATGTAATAAG
1 TCGATACATTTTTAAA-AAGTATCGATCCAAAAAACATCGAAACCAATAATTATAATGTAATAAG
*
86750 TAAATTTACAATGTTACCGGTATAAATAT
65 TAAATTTACAATGTAACCGGTATAAATAT
86779 CGATTTACTT
Statistics
Matches: 423, Mismatches: 51, Indels: 32
0.84 0.10 0.06
Matches are distributed among these distances:
394 6 0.01
395 23 0.05
396 22 0.05
397 104 0.25
398 143 0.34
399 94 0.22
400 31 0.07
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (398 bp):
TCGATACATTTTTAAAAAGTATCGATCCAAAAAACATCGAAACCAATAATTATAATGTAATAAGT
AAATTTACAATGTAACCGGTATAAATATACCGGTTAATGAGAAAATAGGTCAACATAAAGTATCG
AAACTTATGTAATTTGTGTCGATACTTATTGTCCAGAATAAATGCCCAAACGAGGTGCACGCATA
AAGTGTCGATACAATTATTAAAACTATCGATCCCAATAAAACGAAACCGATAATTACAATGTAAT
AGGTAAATTTACAATGTAACAGATAAAAATATACCGATTTTATGAAAAAATAGGTGAGAATAATG
TATCGACACGTTTTATATTTATGTCGATACTTGTTTCCAAAATGAATGTCCAACAAGGTGCACGC
ATAAAGTG
Found at i:86892 original size:64 final size:64
Alignment explanation
Indices: 86823--86976 Score: 211
Period size: 64 Copynumber: 2.4 Consensus size: 64
86813 ACTTATTACA
* *
86823 TATATAAGCGATATCTAATATATTATTATACTTAATAATATTT-TCGGTTAAATGTCTATTTTAT
1 TATATAAGCGATACCTAATATATTATTATACTTAATAATATTTCT-GATTAAATGTCTATTTTAT
* * * *
86887 TATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCTGATTAAATGTCTATTTTAT
1 TATATAAGCGATACCTAATATATTATTATACTTAATAATATTTCTGATTAAATGTCTATTTTAT
* * *
86951 TATATAAGCGCTACCTATTACATTAT
1 TATATAAGCGATACCTAATATATTAT
86977 ATAAACGTTA
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
64 79 0.99
65 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.46
Consensus pattern (64 bp):
TATATAAGCGATACCTAATATATTATTATACTTAATAATATTTCTGATTAAATGTCTATTTTAT
Found at i:86999 original size:23 final size:23
Alignment explanation
Indices: 86949--86993 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
86939 TGTCTATTTT
* *
86949 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAACGCTACCTAATAC
*
86972 ATTATATAAACGTTACCTAATA
1 ATTATATAAACGCTACCTAATA
86994 TGTTATTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.36
Consensus pattern (23 bp):
ATTATATAAACGCTACCTAATAC
Found at i:89678 original size:12 final size:11
Alignment explanation
Indices: 89659--89702 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
89649 AGTTGATATA
89659 ATTTTATTTAT
1 ATTTTATTTAT
89670 ATTTATATTTAT
1 ATTT-TATTTAT
*
89682 ATTTTTTTTATT
1 ATTTTATTTA-T
89694 ATTATTATT
1 ATT-TTATT
89703 ATTTTGTACA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 9 0.32
12 15 0.54
13 4 0.14
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
ATTTTATTTAT
Found at i:94700 original size:22 final size:22
Alignment explanation
Indices: 94674--94728 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
94664 TATACCTTGT
94674 TTTGCCTGTTTTACTTATATGG
1 TTTGCCTGTTTTACTTATATGG
94696 TTTGCCTGTTTTACTTATATGG
1 TTTGCCTGTTTTACTTATATGG
* *
94718 TTGGGCTGTTT
1 TTTGCCTGTTT
94729 CTTTCTGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.11, C:0.13, G:0.22, T:0.55
Consensus pattern (22 bp):
TTTGCCTGTTTTACTTATATGG
Found at i:95349 original size:15 final size:13
Alignment explanation
Indices: 95328--95368 Score: 57
Period size: 12 Copynumber: 3.1 Consensus size: 13
95318 TTTTACCGGA
95328 TAAAAAACCGGTT
1 TAAAAAACCGGTT
95341 TGAAAAAAACCGG-T
1 T--AAAAAACCGGTT
95355 TAAAAAACCGGTT
1 TAAAAAACCGGTT
95368 T
1 T
95369 TTATCCGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 10 0.40
13 3 0.12
14 2 0.08
15 10 0.40
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.22
Consensus pattern (13 bp):
TAAAAAACCGGTT
Found at i:95359 original size:12 final size:12
Alignment explanation
Indices: 95322--95367 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
95312 CCGGTTTTTT
*
95322 ACCGGATAAAAA
1 ACCGGTTAAAAA
95334 ACCGGTTTGAAAAAA
1 ACCGG-TT--AAAAA
95349 ACCGGTTAAAAA
1 ACCGGTTAAAAA
95361 ACCGGTT
1 ACCGGTT
95368 TTTATCCGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 17 0.57
13 1 0.03
14 2 0.07
15 10 0.33
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (12 bp):
ACCGGTTAAAAA
Found at i:112962 original size:24 final size:24
Alignment explanation
Indices: 112930--112977 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
112920 GACTTTGAGA
112930 AAACTATTTCTTTTTCCGGTGTAT
1 AAACTATTTCTTTTTCCGGTGTAT
112954 AAACTATTTCTTTTTCCGGTGTAT
1 AAACTATTTCTTTTTCCGGTGTAT
112978 GAAAAGCATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.17, G:0.12, T:0.50
Consensus pattern (24 bp):
AAACTATTTCTTTTTCCGGTGTAT
Found at i:120585 original size:13 final size:13
Alignment explanation
Indices: 120567--120592 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
120557 CTTAGTAAGT
120567 TTCGATATAATAA
1 TTCGATATAATAA
120580 TTCGATATAATAA
1 TTCGATATAATAA
120593 ATTCTTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
TTCGATATAATAA
Found at i:126436 original size:23 final size:22
Alignment explanation
Indices: 126405--126485 Score: 65
Period size: 23 Copynumber: 3.6 Consensus size: 22
126395 AAACCCAAAA
126405 GATGCATCGATGCACATTCAAG
1 GATGCATCGATGCACATTCAAG
* * * *
126427 GCATGCATCGGTGTACCTTCATG
1 G-ATGCATCGATGCACATTCAAG
* *
126450 G-TGTATTGATGCACATTCAAAGG
1 GATGCATCGATGCACATTC-AA-G
*
126473 GATGCATCAATGC
1 GATGCATCGATGC
126486 CCTATTAAGT
Statistics
Matches: 42, Mismatches: 13, Indels: 6
0.69 0.21 0.10
Matches are distributed among these distances:
21 12 0.29
22 2 0.05
23 20 0.48
24 8 0.19
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (22 bp):
GATGCATCGATGCACATTCAAG
Found at i:129460 original size:65 final size:63
Alignment explanation
Indices: 129356--129536 Score: 215
Period size: 65 Copynumber: 2.8 Consensus size: 63
129346 GTTGGACCTT
* * *
129356 AGTGCATCGGTGCACTAAG-AGTGCAACGATGCATAAAATGCATTTGATGTTTCA-AAATAGC-C
1 AGTGCATCGATGCA-T-AGTAGTGCATCGATGCATAAAATGCATTCGATGTTTCATAAA-A-CTC
129418 TG
62 TG
* *
129420 AGTGCATCGATGCATGGGCTAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAACTCT
1 AGTGCATCGATGCAT-AG-TAGTGCATCGATGCATAAAATGCATTCGATG-TTTCATAAAACTCT
129485 G
63 G
*
129486 AGTGCATCGATGCATAGTATGTGCATCGATGCATGAAATGCATTCGATGTT
1 AGTGCATCGATGCATAGTA-GTGCATCGATGCATAAAATGCATTCGATGTT
129537 CAATTTATTC
Statistics
Matches: 103, Mismatches: 8, Indels: 12
0.84 0.07 0.10
Matches are distributed among these distances:
63 2 0.02
64 17 0.17
65 57 0.55
66 24 0.23
67 3 0.03
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (63 bp):
AGTGCATCGATGCATAGTAGTGCATCGATGCATAAAATGCATTCGATGTTTCATAAAACTCTG
Found at i:130464 original size:15 final size:16
Alignment explanation
Indices: 130440--130483 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
130430 AATAGTTAAG
130440 TAAA-TAAAAAATA-T
1 TAAATTAAAAAATATT
130454 TAAATTAAAAAATATT
1 TAAATTAAAAAATATT
130470 TAAACTTATAAAAA
1 TAAA-TTA-AAAAA
130484 AATAAACAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.15
15 9 0.35
16 5 0.19
17 3 0.12
18 5 0.19
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (16 bp):
TAAATTAAAAAATATT
Found at i:133920 original size:17 final size:18
Alignment explanation
Indices: 133900--133934 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
133890 AGAATTTAAC
*
133900 TTAATTTTAA-ATTAAAA
1 TTAATTATAACATTAAAA
133917 TTAATTATAACATTAAAA
1 TTAATTATAACATTAAAA
133935 AACAGAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
TTAATTATAACATTAAAA
Found at i:134752 original size:182 final size:182
Alignment explanation
Indices: 134443--134918 Score: 704
Period size: 182 Copynumber: 2.6 Consensus size: 182
134433 CGATCCAAAT
* * * * *
134443 TAAAAATGTATCGATCCATATCAATATAACATGTAAAAACATCGATAAAACCGGTCA-CGAAAAG
1 TAAAAATGTATCGATCCACAACGATATAACATGTAAAAATAT-GATAAAACCGGT-ATCGAAATG
* * * *
134507 ACAATACCGGTAAA-TCCTTACCAGATATATTGAACGTGTCAATACTTTAATATAAGGATCGACA
64 ATAAAACCGGTAAAGTGC-TACCAGATATATTGAAAGTGTCAATACTTTAATATAAGGATCGACA
* *
134571 CTTTGTGAATTTAAAAGAGAAGCATTTTTAACGCCTATAAAGTGTCGATACTTTA
128 CTTTGTGAATTTAAAAGAGAAGCAGTTTTAACGCCTATAAAGTGTCGATAATTTA
* * *
134626 TAAAAATGTATCGATCCACAACGATATAACAAGTAAAAATATGACAAAATCGGTATCGAAATGAT
1 TAAAAATGTATCGATCCACAACGATATAACATGTAAAAATATGATAAAACCGGTATCGAAATGAT
* * ** *
134691 AAAACCGGTAAAGAGCTACCAGATATATTTAAAGTGTCGGTACTTTAATATAAGTATCGACACTT
66 AAAACCGGTAAAGTGCTACCAGATATATTGAAAGTGTCAATACTTTAATATAAGGATCGACACTT
*
134756 TGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATAATTTA
131 TGTGAATTTAAAAGAGAAGCAGTTTTAACGCCTATAAAGTGTCGATAATTTA
* *
134808 TAAAAATGTATCGATCCACAATGATATAACATGTAAAAATATGATAAAACCGGTATCAAAATGAT
1 TAAAAATGTATCGATCCACAACGATATAACATGTAAAAATATGATAAAACCGGTATCGAAATGAT
*
134873 AAAACCGATAAAGTGCTACCAGATATATTGAAAGTGTCAATACTTT
66 AAAACCGGTAAAGTGCTACCAGATATATTGAAAGTGTCAATACTTT
134919 CATAAGTACG
Statistics
Matches: 261, Mismatches: 30, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
181 1 0.00
182 222 0.85
183 38 0.15
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.28
Consensus pattern (182 bp):
TAAAAATGTATCGATCCACAACGATATAACATGTAAAAATATGATAAAACCGGTATCGAAATGAT
AAAACCGGTAAAGTGCTACCAGATATATTGAAAGTGTCAATACTTTAATATAAGGATCGACACTT
TGTGAATTTAAAAGAGAAGCAGTTTTAACGCCTATAAAGTGTCGATAATTTA
Found at i:136212 original size:88 final size:90
Alignment explanation
Indices: 136105--136284 Score: 346
Period size: 88 Copynumber: 2.0 Consensus size: 90
136095 GTCAGTTGAA
136105 TGTGCTAGGAGAAATAGGGTTTGGATCATTGGTAGGATTAAGGGATCGACCTATTCAGAGGAAAT
1 TGTGCTAGGAGAAATAGGGTTTGGATCATTGGTAGGATTAAGGGATCGACCTATTCAGAGGAAAT
136170 TTTGTCGATTCTTGATGACACAATT
66 TTTGTCGATTCTTGATGACACAATT
136195 TGTGCTA-G-GAAATAGGGTTTGGATCATTGGTAGGATTAAGGGATCGACCTATTCAGAGGAAAT
1 TGTGCTAGGAGAAATAGGGTTTGGATCATTGGTAGGATTAAGGGATCGACCTATTCAGAGGAAAT
136258 TTTGTCGATTCTTGATGACACAATT
66 TTTGTCGATTCTTGATGACACAATT
136283 TG
1 TG
136285 ATGTCAAACA
Statistics
Matches: 90, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
88 82 0.91
89 1 0.01
90 7 0.08
ACGTcount: A:0.28, C:0.11, G:0.28, T:0.33
Consensus pattern (90 bp):
TGTGCTAGGAGAAATAGGGTTTGGATCATTGGTAGGATTAAGGGATCGACCTATTCAGAGGAAAT
TTTGTCGATTCTTGATGACACAATT
Found at i:137095 original size:15 final size:15
Alignment explanation
Indices: 137075--137105 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
137065 GATGATTGTA
*
137075 GGGATGACGGTGAGG
1 GGGATGACGATGAGG
137090 GGGATGACGATGAGG
1 GGGATGACGATGAGG
137105 G
1 G
137106 AAAATAGAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.58, T:0.13
Consensus pattern (15 bp):
GGGATGACGATGAGG
Found at i:137328 original size:33 final size:33
Alignment explanation
Indices: 137291--137356 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
137281 AAATAGATGG
*
137291 AGTGGTGAAAGAAGTAAAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAAAGGTGTTAAGGGGTGA
**
137324 AGTGGTGAAAGAAGTTGAGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAAAGGTGTTAAGGGGTGA
137357 TCTTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.32, C:0.00, G:0.45, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAAAGGTGTTAAGGGGTGA
Found at i:138972 original size:64 final size:64
Alignment explanation
Indices: 138888--139033 Score: 188
Period size: 64 Copynumber: 2.3 Consensus size: 64
138878 CATTCATAAG
* * *
138888 TGCATCGATGCATTCC-TTTAAAAGAAGAACATCGAATGCCTTTGATGCATCGATGCA-TAGCTA
1 TGCATCGATGCA-TCCTTTTAAAAGAAGAACATCGAATGCATTTGATGCACCGATGCACAAG-TA
138951 A
64 A
* * * *
138952 TGCATCGATGCATCCTTTTAAAATAATAACATCGAATGCATTTTATGCACCGATGCACAAGTAG
1 TGCATCGATGCATCCTTTTAAAAGAAGAACATCGAATGCATTTGATGCACCGATGCACAAGTAA
139016 TGCATCGATGCATACCTT
1 TGCATCGATGCAT-CCTT
139034 CATTGAAAGA
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
63 3 0.04
64 63 0.88
65 6 0.08
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.29
Consensus pattern (64 bp):
TGCATCGATGCATCCTTTTAAAAGAAGAACATCGAATGCATTTGATGCACCGATGCACAAGTAA
Found at i:139742 original size:30 final size:30
Alignment explanation
Indices: 139706--139769 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
139696 AAGGAACATA
* *
139706 TGGATAGTTGCCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
* * *
139736 TGGATAGTTACCGGGGTTCTTTGTAACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
139766 TGGA
1 TGGA
139770 CAGGTCCTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (30 bp):
TGGATAGTTACCGAGGATCTTTATAACCTC
Found at i:143158 original size:64 final size:64
Alignment explanation
Indices: 143074--143219 Score: 188
Period size: 64 Copynumber: 2.3 Consensus size: 64
143064 CATTCATAAG
* * *
143074 TGCATCGATGCATTCC-TTTAAAAGAAGAACATCGAATGCCTTTGATGCATCGATGCA-TAGCTA
1 TGCATCGATGCA-TCCTTTTAAAAGAAGAACATCGAATGCATTTGATGCACCGATGCACAAG-TA
143137 A
64 A
* * * *
143138 TGCATCGATGCATCCTTTTAAAATAATAACATCGAATGCATTTTATGCACCGATGCACAAGTAG
1 TGCATCGATGCATCCTTTTAAAAGAAGAACATCGAATGCATTTGATGCACCGATGCACAAGTAA
143202 TGCATCGATGCATACCTT
1 TGCATCGATGCAT-CCTT
143220 CATTGAAAGA
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
63 3 0.04
64 63 0.88
65 6 0.08
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.29
Consensus pattern (64 bp):
TGCATCGATGCATCCTTTTAAAAGAAGAACATCGAATGCATTTGATGCACCGATGCACAAGTAA
Found at i:143929 original size:30 final size:30
Alignment explanation
Indices: 143893--143956 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
143883 AAGGAACATA
* *
143893 TGGATAGTTGCCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
* * *
143923 TGGATAGTTACCGGGGTTCTTTGTAACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
143953 TGGA
1 TGGA
143957 CAGGTCCTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (30 bp):
TGGATAGTTACCGAGGATCTTTATAACCTC
Found at i:145127 original size:2 final size:2
Alignment explanation
Indices: 145120--145166 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
145110 TTGGTATGTA
145120 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
145162 TG TG T
1 TG TG T
145167 ATGTATGAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:147200 original size:251 final size:250
Alignment explanation
Indices: 146741--147232 Score: 706
Period size: 251 Copynumber: 2.0 Consensus size: 250
146731 TAAAGTTTCC
*
146741 CATAAAGTATCGATCCATATATAAAAAGTAACGACCCAAAAAACATCGAAACCCATAATTATAAT
1 CATAAAGTATCGATACATATATAAAAAGT-ACGACCCAAAAAACATCGAAACCCATAATTATAAT
* **
146806 GTAATGGGTAATTTTTCAATATAATTGGTATAAATATACCGGTTTTATGAAAAATATGTCTACAA
65 GTAATAGGTAATTTTTCAATATAACCGGTATAAATATACCGGTTTTATGAAAAATATGTCTACAA
* * *
146871 CATTTATCGACACTTATTAGTATTGTGTCGATATTTTTTGTCCAGAATGGATGCCAAAAAGGGTA
130 CATGTATCGACACTTATTAATATTGTGTCGATAATTTTTGTCCAGAATGGATGCCAAAAAGGGTA
* *
146936 AACCTACAAAGTGTCGATACATTTTCATAGAGTGTCGAT-CCAAAAGGGTTGCACG
195 AACCTACAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCCAAAAGGGTTGCACG
* * *
146991 CATAAAGTGTCGATACATTTATTAAAAGAGT-CGATCCC-AAAAACATCGAAGCCCATAATTATA
1 CATAAAGTATCGATACATATA-TAAAA-AGTACGA-CCCAAAAAACATCGAAACCCATAATTATA
* *
147054 ATGTAATAGGTAATTTTGT-AATATAACCGGTATACATATACCGGTTTTATGAGAGAATATGTCT
63 ATGTAATAGGTAATTTT-TCAATATAACCGGTATAAATATACCGGTTTTATGA-AAAATATGTCT
* * * *
147118 ATAATATGTATTGACACTTATTAATATTGTGTCGATAATTTTTGTCCATAATGGATGCCAAAAAG
126 ACAACATGTATCGACACTTATTAATATTGTGTCGATAATTTTTGTCCAGAATGGATGCCAAAAAG
* *
147183 GGTGAACGC-ATAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCCAAAA
191 GGTAAAC-CTACAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCCAAAA
147233 ACATCGAAAC
Statistics
Matches: 215, Mismatches: 20, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
250 91 0.42
251 114 0.53
252 10 0.05
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (250 bp):
CATAAAGTATCGATACATATATAAAAAGTACGACCCAAAAAACATCGAAACCCATAATTATAATG
TAATAGGTAATTTTTCAATATAACCGGTATAAATATACCGGTTTTATGAAAAATATGTCTACAAC
ATGTATCGACACTTATTAATATTGTGTCGATAATTTTTGTCCAGAATGGATGCCAAAAAGGGTAA
ACCTACAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCCAAAAGGGTTGCACG
Found at i:149204 original size:200 final size:197
Alignment explanation
Indices: 148804--149513 Score: 709
Period size: 200 Copynumber: 3.5 Consensus size: 197
148794 ACCTAAATAT
* * * *
148804 GTGTTGATACATTT-TATACAAGTATCGA-CCCAAAAAACATCAAAACCAATAATTATAATGTAA
1 GTGTCGATACATTTAT-TAAAAGTATCGATCCC-AAAAACATCGAAACCGATAATTATAATGTAA
* ** * * *
148867 TAGGTAAATTAACAATGTAAATGGTATAAATATACCGG-TTAATTAGAAAATATGTCAACATAAT
64 TAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTC-ACATAAT
* * * *
148931 GTATCGACACTTGTGTAATTTGTGTCGATACTTATTGTCCAGGATGAAT-GCACAAACGAGATGC
128 GTATCGACACTTGT-TAATTTGTGTCGATACTT-TTGTCCAGAATGAATACCA-AAAAG-GGTGC
148995 -ACGCATAAA
189 AAC-CATAAA
* *
149004 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAATATCGAAACCGATAATTATAATGTATTA
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * * *
149069 GGTAAATTTACAATGTAACCGATATAAATATATCGGTTTTATGATAAAATAGGTCAGCATAAAGT
66 GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCA-CATAATGT
* *
149134 ATCGACACTTAATAAATTTGTGTCGATACTTTTGGTCCAGAATGAATACCAAAAAGGGTGCAACC
130 ATCGACACTT-GTTAATTTGTGTCGATACTTTT-GTCCAGAATGAATACCAAAAAGGGTGCAACC
149199 ATAAA
193 ATAAA
* ** * * *
149204 GTGTCGATACATTTATAAAAAGTATCGATCCCGGAAACATCGAAACCCATAAGTATAATTTAATA
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * * * * *
149269 GGTAAATTTTCAATATAACCGGTATAAATATACCGATTTTATGAGAGAATAGGTTTAAATAATGT
66 GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGG-TCACATAATGT
** * **
149334 ATCGACACATTGTTAGGTTGTGTCGATACTTTTTTTCCAGAATGAAATATGAATGTCCAACCA-G
130 ATCGACAC-TTGTTAATTTGTGTCGATAC-TTTTGTCCAGAATG--A-AT--A---CCAAAAAGG
*
149398 GTGCAAGCATAAA
185 GTGCAACCATAAA
** * * * *
149411 GTGTCGATACA--TA-TAAAATTGTATCGATCTAAAAAACATTGTAACCGATAATAATAATATAA
1 GTGTCGATACATTTATTAAAA--GTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAA
* *
149473 TAGGTAAATTTATAATGTTACCGGTATAAATATACCGGTTT
64 TAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTT
149514 ACTTTGAAAA
Statistics
Matches: 425, Mismatches: 64, Indels: 36
0.81 0.12 0.07
Matches are distributed among these distances:
200 237 0.56
201 78 0.18
202 4 0.01
203 2 0.00
204 4 0.01
205 3 0.01
206 68 0.16
207 24 0.06
208 5 0.01
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (197 bp):
GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCACATAATGTA
TCGACACTTGTTAATTTGTGTCGATACTTTTGTCCAGAATGAATACCAAAAAGGGTGCAACCATA
AA
Found at i:154122 original size:19 final size:17
Alignment explanation
Indices: 154087--154119 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
154077 AAAAAATTGT
154087 GTCTGTGACTGTTTTTA
1 GTCTGTGACTGTTTTTA
154104 GTCTGTGACTGTTTTT
1 GTCTGTGACTGTTTTT
154120 TTAAAGTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.09, C:0.12, G:0.24, T:0.55
Consensus pattern (17 bp):
GTCTGTGACTGTTTTTA
Found at i:156703 original size:48 final size:48
Alignment explanation
Indices: 156632--156726 Score: 136
Period size: 48 Copynumber: 2.0 Consensus size: 48
156622 ATTTATTGTC
156632 AAAATAATGAAACATATTCTATGTGAACTCAACAATTAAACTCTTTTT
1 AAAATAATGAAACATATTCTATGTGAACTCAACAATTAAACTCTTTTT
* * * * * *
156680 AAAATAATGAAATATGTTTTATGTTAACTCAGCAATTAATCTCTTTT
1 AAAATAATGAAACATATTCTATGTGAACTCAACAATTAAACTCTTTT
156727 AGCTTAGATA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (48 bp):
AAAATAATGAAACATATTCTATGTGAACTCAACAATTAAACTCTTTTT
Found at i:163936 original size:20 final size:20
Alignment explanation
Indices: 163911--163949 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
163901 CTTTCACTCC
*
163911 CTTCCATAAGTTTCCACACT
1 CTTCCATAAGGTTCCACACT
163931 CTTCCATAAGGTTCCACAC
1 CTTCCATAAGGTTCCACAC
163950 ATCTCTAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.36, G:0.08, T:0.31
Consensus pattern (20 bp):
CTTCCATAAGGTTCCACACT
Found at i:164073 original size:20 final size:20
Alignment explanation
Indices: 164027--164079 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
164017 GAGTCCTCCG
* *
164027 GAATATTCTAGAAAATTCTA
1 GAATTTTCTAGAAAACTCTA
* *
164047 CACTTTTCTAGAAAACTCTA
1 GAATTTTCTAGAAAACTCTA
*
164067 GAATTTTTTAGAA
1 GAATTTTCTAGAA
164080 CCTCTCCAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (20 bp):
GAATTTTCTAGAAAACTCTA
Found at i:168381 original size:58 final size:58
Alignment explanation
Indices: 168291--168407 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
168281 CTTTCTTTAC
168291 ATTGCTTTTGTGTGGGTTAAATACCCATTACAAAGGAAAAATAAAATAATGATAGTGG
1 ATTGCTTTTGTGTGGGTTAAATACCCATTACAAAGGAAAAATAAAATAATGATAGTGG
168349 ATTGCTTTTGTGTGGGTTAAATACCCATTACAAAGGAAAAATAAAATAATGATAGTGG
1 ATTGCTTTTGTGTGGGTTAAATACCCATTACAAAGGAAAAATAAAATAATGATAGTGG
168407 A
1 A
168408 AGCACACTAG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.31
Consensus pattern (58 bp):
ATTGCTTTTGTGTGGGTTAAATACCCATTACAAAGGAAAAATAAAATAATGATAGTGG
Found at i:170509 original size:51 final size:52
Alignment explanation
Indices: 170404--170509 Score: 137
Period size: 51 Copynumber: 2.1 Consensus size: 52
170394 TATTAAATGC
* * * *
170404 ATAAATAATATTATTTATTATTAATAATTTATTAATATTTTTTAAGAAATTA
1 ATAAATAATATAAATTATTATTAATAATTTATTAATATTTATTAAGAAAATA
170456 ATAAATAATATAAATT-TTATTAATAATTTATT-ATATATTATTAA-AATAATA
1 ATAAATAATATAAATTATTATTAATAATTTATTAATAT-TTATTAAGAA-AATA
170507 ATA
1 ATA
170510 TATTATATTG
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
50 6 0.12
51 28 0.58
52 14 0.29
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (52 bp):
ATAAATAATATAAATTATTATTAATAATTTATTAATATTTATTAAGAAAATA
Found at i:170523 original size:24 final size:22
Alignment explanation
Indices: 170488--170610 Score: 68
Period size: 24 Copynumber: 5.1 Consensus size: 22
170478 ATAATTTATT
170488 ATATATTATTAAAATAATAATATA
1 ATATATT-TTAAAATAATAATA-A
* *
170512 TTATATTGTTAAAAGTATTAATAA
1 ATATATT-TTAAAA-TAATAATAA
*
170536 ATATATTTTAAATAATTTAATAATTA
1 ATATATTTT-AA-AA--TAATAATAA
* * *
170562 ATATTTTATTAAAATGATACTAAA
1 ATATATT-TTAAAATAATAAT-AA
* *
170586 ATATCATTTTAATATTA-AATAA
1 ATAT-ATTTTAAAATAATAATAA
170608 ATA
1 ATA
170611 AGATAATATT
Statistics
Matches: 77, Mismatches: 15, Indels: 16
0.71 0.14 0.15
Matches are distributed among these distances:
22 5 0.06
23 9 0.12
24 33 0.43
25 13 0.17
26 15 0.19
27 2 0.03
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
ATATATTTTAAAATAATAATAA
Found at i:171165 original size:22 final size:22
Alignment explanation
Indices: 171122--171165 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
171112 TTTAAAATTA
* *
171122 TTATTAAATATATTGAAGTATT
1 TTATTAAATATACTGAACTATT
171144 TTATTAAAATATACT-AACTATT
1 TTATT-AAATATACTGAACTATT
171166 ATTAATATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (22 bp):
TTATTAAATATACTGAACTATT
Found at i:172871 original size:15 final size:15
Alignment explanation
Indices: 172853--172926 Score: 57
Period size: 15 Copynumber: 5.1 Consensus size: 15
172843 GTGAAATTCT
172853 AATTATTTAAATAAA
1 AATTATTTAAATAAA
**
172868 AATTATTTGTATAAA
1 AATTATTTAAATAAA
**
172883 AATTCA--TCGAT-AA
1 AATT-ATTTAAATAAA
*
172896 TA-TATTTAAATAAA
1 AATTATTTAAATAAA
*
172910 AATTATTTATATAAA
1 AATTATTTAAATAAA
172925 AA
1 AA
172927 ATCATCGATA
Statistics
Matches: 45, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
11 1 0.02
12 1 0.02
13 6 0.13
14 6 0.13
15 30 0.67
16 1 0.02
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (15 bp):
AATTATTTAAATAAA
Found at i:172904 original size:42 final size:42
Alignment explanation
Indices: 172852--172943 Score: 159
Period size: 42 Copynumber: 2.2 Consensus size: 42
172842 AGTGAAATTC
* *
172852 TAAT-TATTTAAATAAAAATTATTTGTATAAAAATTCATCGA
1 TAATATATTTAAATAAAAATTATTTATATAAAAAATCATCGA
172893 TAATATATTTAAATAAAAATTATTTATATAAAAAATCATCGA
1 TAATATATTTAAATAAAAATTATTTATATAAAAAATCATCGA
172935 TAATATATT
1 TAATATATT
172944 ATTTTATTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
41 4 0.08
42 44 0.92
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.41
Consensus pattern (42 bp):
TAATATATTTAAATAAAAATTATTTATATAAAAAATCATCGA
Found at i:178766 original size:66 final size:69
Alignment explanation
Indices: 178644--178785 Score: 209
Period size: 72 Copynumber: 2.1 Consensus size: 69
178634 CCTCTCAGAG
178644 GGTATGCATTTGGTGCATGATATTCTACCACCACCAGAAAATGTTAATGTATATATATAAAACTT
1 GGTATGCATTTGGTGCATGATATTCTACCACCACCAGAAAATG---ATGTATATATATAAAACTT
178709 TTAAGGT
63 TTAAGGT
* * *
178716 GGTATGCATTTGGTGCATGATATTCTGCCTCCACCAGAAAATG-T-T-TATATATATAACTTTTA
1 GGTATGCATTTGGTGCATGATATTCTACCACCACCAGAAAATGATGTATATATATAAAACTTTTA
178778 AGGT
66 AGGT
178782 GGTA
1 GGTA
178786 GTATTGTTTT
Statistics
Matches: 67, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
66 24 0.36
67 1 0.01
68 1 0.01
72 41 0.61
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (69 bp):
GGTATGCATTTGGTGCATGATATTCTACCACCACCAGAAAATGATGTATATATATAAAACTTTTA
AGGT
Found at i:184679 original size:48 final size:48
Alignment explanation
Indices: 184623--184727 Score: 185
Period size: 48 Copynumber: 2.2 Consensus size: 48
184613 TGTTATGGCA
*
184623 TGCTAAGGTTCAGGCTCAGGTTGTCTTGTTATGTATTCATACCGCTGG
1 TGCTAAGGTTCAGGCTCAGGTTGGCTTGTTATGTATTCATACCGCTGG
*
184671 TGCTAAGGTTCAGGCTCATGTTGGCTTGTTATGTATTCATACCGCTGG
1 TGCTAAGGTTCAGGCTCAGGTTGGCTTGTTATGTATTCATACCGCTGG
184719 TGCT-AGGTT
1 TGCTAAGGTT
184728 GTGGCTGTGT
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
47 5 0.09
48 50 0.91
ACGTcount: A:0.16, C:0.18, G:0.28, T:0.38
Consensus pattern (48 bp):
TGCTAAGGTTCAGGCTCAGGTTGGCTTGTTATGTATTCATACCGCTGG
Found at i:185010 original size:2 final size:2
Alignment explanation
Indices: 185003--185048 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
184993 GTTCTGACAA
185003 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
185045 AT AT
1 AT AT
185049 CATCTTTCTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:189021 original size:2 final size:2
Alignment explanation
Indices: 189014--189077 Score: 119
Period size: 2 Copynumber: 32.0 Consensus size: 2
189004 AATATTCTTA
*
189014 AG AG AG AG GG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
189056 AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG
189078 TAACATCAAG
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:192537 original size:20 final size:20
Alignment explanation
Indices: 192508--192547 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
192498 AGCAACAGAA
* *
192508 TAAAACTGATTCTATCTAAT
1 TAAAAATGATCCTATCTAAT
192528 TAAAAATGATCCTATCTAAT
1 TAAAAATGATCCTATCTAAT
192548 AACTAATAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.38
Consensus pattern (20 bp):
TAAAAATGATCCTATCTAAT
Found at i:192586 original size:20 final size:20
Alignment explanation
Indices: 192561--192599 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
192551 TAATAGAATA
*
192561 AAAACTGATTCTATCTAATT
1 AAAACTGATCCTATCTAATT
192581 AAAACTGATCCTATCTAAT
1 AAAACTGATCCTATCTAAT
192600 ATTTAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAACTGATCCTATCTAATT
Found at i:197197 original size:20 final size:21
Alignment explanation
Indices: 197167--197207 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
197157 AGCAACAGAA
*
197167 TAAAAACTGATTCTATCTAAT
1 TAAAAACTGATCCTATCTAAT
197188 TAAAAA-TGATCCTATCTAAT
1 TAAAAACTGATCCTATCTAAT
197208 AACTAATAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.37
Consensus pattern (21 bp):
TAAAAACTGATCCTATCTAAT
Found at i:197246 original size:20 final size:20
Alignment explanation
Indices: 197221--197259 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
197211 TAATAGAATA
*
197221 AAAACTGATTCTATCTAATT
1 AAAACTGATCCTATCTAATT
197241 AAAACTGATCCTATCTAAT
1 AAAACTGATCCTATCTAAT
197260 ATTTAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAACTGATCCTATCTAATT
Found at i:203220 original size:23 final size:23
Alignment explanation
Indices: 203194--203238 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
203184 TTTTCAATAA
203194 ATTTGCTTATACGACAAGTTTTC
1 ATTTGCTTATACGACAAGTTTTC
* * *
203217 ATTTGCTTTTATGACACGTTTT
1 ATTTGCTTATACGACAAGTTTT
203239 TCTTCTGCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.22, C:0.16, G:0.13, T:0.49
Consensus pattern (23 bp):
ATTTGCTTATACGACAAGTTTTC
Found at i:203712 original size:2 final size:2
Alignment explanation
Indices: 203705--203744 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
203695 AAAATTAGTG
203705 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
203745 GATTTGTTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:208599 original size:4 final size:4
Alignment explanation
Indices: 208590--208626 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
208580 CTGTTCTATA
208590 GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT G
1 GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT G
208627 CTAGTTTGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.27, T:0.24
Consensus pattern (4 bp):
GAAT
Found at i:209918 original size:13 final size:13
Alignment explanation
Indices: 209900--209974 Score: 55
Period size: 12 Copynumber: 5.6 Consensus size: 13
209890 TGGAAAGATA
*
209900 AAATATCAATTAT
1 AAATATAAATTAT
*
209913 AAATATTATATTAT
1 AAATA-TAAATTAT
*
209927 AAATTTAAATTAT
1 AAATATAAATTAT
*
209940 AAAAAATATAAA-TAA
1 ---AAATATAAATTAT
209955 AAATAT-AATTAT
1 AAATATAAATTAT
*
209967 AATTATAA
1 AAATATAA
209975 TAAAAATATA
Statistics
Matches: 48, Mismatches: 8, Indels: 12
0.71 0.12 0.18
Matches are distributed among these distances:
11 2 0.04
12 13 0.27
13 13 0.27
14 10 0.21
15 2 0.04
16 8 0.17
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (13 bp):
AAATATAAATTAT
Found at i:209925 original size:14 final size:13
Alignment explanation
Indices: 209907--209942 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
209897 ATAAAATATC
209907 AATTATAAATATTA
1 AATTATAAAT-TTA
*
209921 TATTATAAATTTA
1 AATTATAAATTTA
209934 AATTATAAA
1 AATTATAAA
209943 AAATATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AATTATAAATTTA
Found at i:209958 original size:12 final size:12
Alignment explanation
Indices: 209941--209984 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
209931 TTAAATTATA
209941 AAAAATATAAAT
1 AAAAATATAAAT
*
209953 AAAAATATAATT
1 AAAAATATAAAT
* *
209965 ATAATTAT-AAT
1 AAAAATATAAAT
209976 AAAAATATA
1 AAAAATATA
209985 TTTTATAATA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
11 8 0.32
12 17 0.68
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAAATATAAAT
Found at i:209964 original size:27 final size:27
Alignment explanation
Indices: 209899--209984 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 27
209889 TTGGAAAGAT
* * * *
209899 AAAATATCAATTATAAATATTATATTA
1 AAAATATAAATTATAAAAAATATAATA
* *
209926 TAAATTTAAATTATAAAAAATATAAATA
1 AAAATATAAATTATAAAAAATAT-AATA
*
209954 AAAATAT-AATTAT---AATTATAATA
1 AAAATATAAATTATAAAAAATATAATA
209977 AAAATATA
1 AAAATATA
209985 TTTTATAATA
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
23 11 0.23
24 5 0.10
27 24 0.50
28 8 0.17
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (27 bp):
AAAATATAAATTATAAAAAATATAATA
Found at i:211241 original size:4 final size:4
Alignment explanation
Indices: 211232--211308 Score: 50
Period size: 4 Copynumber: 18.5 Consensus size: 4
211222 TTTCGTTTTG
* * * * *
211232 TTTA TTTA TTT- TATT- TTTA TTTTC TTTA TTCA TTGA TTCA TTTT TTCTA
1 TTTA TTTA TTTA T-TTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TT-TA
211281 TTTTA TTTA TTTA TTTA TTTA TCTTA TT
1 -TTTA TTTA TTTA TTTA TTTA T-TTA TT
211309 CCATTGTCTT
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
3 3 0.05
4 44 0.75
5 10 0.17
6 2 0.03
ACGTcount: A:0.19, C:0.06, G:0.01, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:212422 original size:10 final size:10
Alignment explanation
Indices: 212390--212444 Score: 67
Period size: 10 Copynumber: 5.4 Consensus size: 10
212380 TTTTCTTGCC
212390 ATTTA-TTTT
1 ATTTATTTTT
*
212399 ACTATTATTATT
1 A-T-TTATTTTT
212411 ATTTATTTTT
1 ATTTATTTTT
*
212421 ATTTATTTCT
1 ATTTATTTTT
212431 ATTTATTTTT
1 ATTTATTTTT
212441 ATTT
1 ATTT
212445 TACTAACTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
9 1 0.03
10 30 0.77
11 4 0.10
12 4 0.10
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.73
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:214101 original size:4 final size:4
Alignment explanation
Indices: 214092--214169 Score: 65
Period size: 4 Copynumber: 19.5 Consensus size: 4
214082 CTTCGTTTTG
*
214092 TTTA TTTA TTT- TATT- TTTA TTTTA TTTA TTTA TTTTC TTTA TTTA TTT-
1 TTTA TTTA TTTA T-TTA TTTA -TTTA TTTA TTTA -TTTA TTTA TTTA TTTA
* *
214140 TTCA TAT- TTTA TTTA TTTA TTTA TCTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TT
214170 CTGTTGTCTT
Statistics
Matches: 61, Mismatches: 6, Indels: 14
0.75 0.07 0.17
Matches are distributed among these distances:
3 7 0.11
4 43 0.70
5 11 0.18
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:214106 original size:9 final size:9
Alignment explanation
Indices: 214092--214169 Score: 74
Period size: 9 Copynumber: 8.7 Consensus size: 9
214082 CTTCGTTTTG
214092 TTTATTTAT
1 TTTATTTAT
214101 TTTATTTTTAT
1 TTTA--TTTAT
214112 TTTATTTA-
1 TTTATTTAT
214120 TTTATTT-T
1 TTTATTTAT
214128 CTTTATTTAT
1 -TTTATTTAT
*
214138 TTT-TCATAT
1 TTTAT-TTAT
214147 TTTATTTA-
1 TTTATTTAT
214155 TTTATTTAT
1 TTTATTTAT
*
214164 CTTATT
1 TTTATT
214170 CTGTTGTCTT
Statistics
Matches: 58, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
8 16 0.28
9 31 0.53
10 2 0.03
11 9 0.16
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTATTTAT
Found at i:214168 original size:13 final size:13
Alignment explanation
Indices: 214087--214169 Score: 84
Period size: 13 Copynumber: 6.5 Consensus size: 13
214077 TTTCCCTTCG
*
214087 TTTTGTTTATTTA
1 TTTTATTTATTTA
214100 TTTTA-TT-TTTA
1 TTTTATTTATTTA
214111 TTTTATTTATTTA
1 TTTTATTTATTTA
*
214124 TTTTCTTTATTTA
1 TTTTATTTATTTA
*
214137 TTTT-TCATATTT-
1 TTTTAT-TTATTTA
214149 TATTTATTTATTTA
1 T-TTTATTTATTTA
*
214163 TCTTATT
1 TTTTATT
214170 CTGTTGTCTT
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
11 9 0.15
12 6 0.10
13 42 0.71
14 2 0.03
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (13 bp):
TTTTATTTATTTA
Found at i:220374 original size:14 final size:14
Alignment explanation
Indices: 220355--220391 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
220345 CTATGGCACT
220355 TATGCCTTTCGAAG
1 TATGCCTTTCGAAG
220369 TATGCCTTTCGAAG
1 TATGCCTTTCGAAG
*
220383 AATGCCTTT
1 TATGCCTTT
220392 TGGACTCTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.38
Consensus pattern (14 bp):
TATGCCTTTCGAAG
Found at i:225434 original size:21 final size:22
Alignment explanation
Indices: 225410--225453 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
225400 TATTGCAAAT
225410 AGGGAA-CGATTCCCCTACTAC
1 AGGGAACCGATTCCCCTACTAC
* *
225431 AGGGAACCGATTTCCCTGCTAC
1 AGGGAACCGATTCCCCTACTAC
225453 A
1 A
225454 ATACTGCTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.27, C:0.32, G:0.20, T:0.20
Consensus pattern (22 bp):
AGGGAACCGATTCCCCTACTAC
Found at i:226048 original size:18 final size:18
Alignment explanation
Indices: 226025--226059 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
226015 ACTGAATATT
226025 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
226043 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
226060 GTACATGTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.26, C:0.34, G:0.23, T:0.17
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:226070 original size:22 final size:21
Alignment explanation
Indices: 226025--226084 Score: 81
Period size: 22 Copynumber: 3.0 Consensus size: 21
226015 ACTGAATATT
226025 TGTCCCGAAGGACCAC--T-A
1 TGTCCCGAAGGACCACTGTAA
226043 TGTCCCGAAGGACCACTGTACA
1 TGTCCCGAAGGACCACTGTA-A
*
226065 TGTCCCGAAAGACCACTGTA
1 TGTCCCGAAGGACCACTGTA
226085 TAACCCTCGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
18 16 0.43
20 1 0.03
22 20 0.54
ACGTcount: A:0.28, C:0.32, G:0.22, T:0.18
Consensus pattern (21 bp):
TGTCCCGAAGGACCACTGTAA
Found at i:237056 original size:24 final size:25
Alignment explanation
Indices: 237027--237075 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
237017 TTGTTTGAAA
*
237027 GAAAAAAAGAGAAAA-GAAAAAACAT
1 GAAAAAATG-GAAAACGAAAAAACAT
*
237052 GAAAAAATGGAAAACGAAACAACA
1 GAAAAAATGGAAAACGAAAAAACA
237076 ACAAAGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.71, C:0.08, G:0.16, T:0.04
Consensus pattern (25 bp):
GAAAAAATGGAAAACGAAAAAACAT
Found at i:238305 original size:18 final size:19
Alignment explanation
Indices: 238282--238318 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
238272 TCTGCGTTTT
238282 TTTTCAAAATCAAA-ATAG
1 TTTTCAAAATCAAAGATAG
238300 TTTTCAAAATCAAAGATAG
1 TTTTCAAAATCAAAGATAG
238319 ACTTTGGTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.32
Consensus pattern (19 bp):
TTTTCAAAATCAAAGATAG
Found at i:244783 original size:10 final size:10
Alignment explanation
Indices: 244753--244791 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
244743 GTTTGATGCT
*
244753 TTCTTTTTGA
1 TTCTTGTTGA
*
244763 TTCTCTCTTGA
1 TTCT-TGTTGA
244774 TTCTTGTTGA
1 TTCTTGTTGA
244784 TTCTTGTT
1 TTCTTGTT
244792 TCTTGTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.08, C:0.15, G:0.13, T:0.64
Consensus pattern (10 bp):
TTCTTGTTGA
Found at i:245024 original size:21 final size:21
Alignment explanation
Indices: 244995--245048 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
244985 ACCGTTGATC
244995 GGGG-GAATCGGTTCCCCCTT
1 GGGGAGAATCGGTTCCCCCTT
245015 GGGGAGAATCGGTTCCCCCTT
1 GGGGAGAATCGGTTCCCCCTT
245036 GGGGAGAATCGGT
1 GGGGAGAATCGGT
245049 ACCCTCTGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 4 0.12
21 29 0.88
ACGTcount: A:0.15, C:0.24, G:0.39, T:0.22
Consensus pattern (21 bp):
GGGGAGAATCGGTTCCCCCTT
Found at i:261472 original size:30 final size:30
Alignment explanation
Indices: 261433--261498 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
261423 GAAGGACCTA
* * *
261433 TCCAGAGGTCATAAAGAACCTCAG-CAACTG
1 TCCATAGGTCACAAAGAACCT-AGTAAACTG
*
261463 TCCATAGGTCCCAAAGAACCTAGTAAACTG
1 TCCATAGGTCACAAAGAACCTAGTAAACTG
261493 TCCATA
1 TCCATA
261499 TGTTCTTTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 2 0.06
30 29 0.94
ACGTcount: A:0.36, C:0.27, G:0.17, T:0.20
Consensus pattern (30 bp):
TCCATAGGTCACAAAGAACCTAGTAAACTG
Found at i:261562 original size:32 final size:32
Alignment explanation
Indices: 261510--261646 Score: 195
Period size: 32 Copynumber: 4.3 Consensus size: 32
261500 GTTCTTTAGA
* * *
261510 ACATAGGT-ATAATGTCCATATGTCCCGAAAT
1 ACATAGGTAATTATGTCCATATGTCCCAAAAG
*
261541 ACATAGGTAATTATGTCCATATGTCCCGAAAG
1 ACATAGGTAATTATGTCCATATGTCCCAAAAG
* *
261573 ACATAGGTAATTCTATCCATATGTCCCAAAAG
1 ACATAGGTAATTATGTCCATATGTCCCAAAAG
* *
261605 ACATAGGTAATTCTGTCCATATGTCTCAAAAG
1 ACATAGGTAATTATGTCCATATGTCCCAAAAG
261637 ACATAGGTAA
1 ACATAGGTAA
261647 ACCCTCGACT
Statistics
Matches: 98, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
31 8 0.08
32 90 0.92
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.28
Consensus pattern (32 bp):
ACATAGGTAATTATGTCCATATGTCCCAAAAG
Found at i:262403 original size:16 final size:17
Alignment explanation
Indices: 262382--262426 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
262372 CATATCAATA
262382 ACACATATACTCAT-GC
1 ACACATATACTCATAGC
262398 ACACATATAACTCATAGC
1 ACACATAT-ACTCATAGC
* *
262416 AAACACATACT
1 ACACATATACT
262427 TCTATGAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 8 0.32
17 9 0.36
18 8 0.32
ACGTcount: A:0.44, C:0.29, G:0.04, T:0.22
Consensus pattern (17 bp):
ACACATATACTCATAGC
Found at i:265649 original size:32 final size:32
Alignment explanation
Indices: 265595--265731 Score: 152
Period size: 32 Copynumber: 4.3 Consensus size: 32
265585 GTTCTTTAGA
* *
265595 ACATAGGT-ATACTGTCCATATGTCCCAAAAG
1 ACATAGGTAATTCTATCCATATGTCCCAAAAG
**
265626 ACATAGGTAATTCTATCCATATGTCCTGAAAG
1 ACATAGGTAATTCTATCCATATGTCCCAAAAG
** *
265658 ACATATATAATTCTATCCATATGTCCCGAAAG
1 ACATAGGTAATTCTATCCATATGTCCCAAAAG
* * * *
265690 GCATAGGTAATTTTGTCTATATG-CCTCAAAAG
1 ACATAGGTAATTCTATCCATATGTCC-CAAAAG
265722 ACATAGGTAA
1 ACATAGGTAA
265732 ACCCTCGACT
Statistics
Matches: 89, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
31 10 0.11
32 79 0.89
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (32 bp):
ACATAGGTAATTCTATCCATATGTCCCAAAAG
Found at i:269150 original size:30 final size:31
Alignment explanation
Indices: 269111--269177 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
269101 TAATGACCTA
* * *
269111 TCCAGAGGTCATAAAGAACCTCGG-AAACTG
1 TCCATAGGTCACAAAGAACCTAGGTAAACTG
* *
269141 TCCATAGGTCCCGAAGAACCTAGGTAAACTG
1 TCCATAGGTCACAAAGAACCTAGGTAAACTG
269172 TCCATA
1 TCCATA
269178 TGTTCTTTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
30 19 0.61
31 12 0.39
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.19
Consensus pattern (31 bp):
TCCATAGGTCACAAAGAACCTAGGTAAACTG
Done.